Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1350020 | XP_013444287.1 | 96.855 | 159 | 5 | 0 | 1 | 159 | 1 | 159 | 6.50e-109 | 322 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1350020 | sp|Q9FZ62|PPSP2_ARATH | 72.121 | 165 | 45 | 1 | 3 | 167 | 5 | 168 | 1.25e-85 | 255 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1350020 | A0A072TLD9 | 96.855 | 159 | 5 | 0 | 1 | 159 | 1 | 159 | 3.11e-109 | 322 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1350020 | Msa1390060 | 0.901073 | 3.873106e-78 | -8.615850e-47 |
| Msa1268760 | Msa1350020 | 0.855399 | 6.475176e-62 | -8.615850e-47 |
| Msa1313220 | Msa1350020 | 0.931635 | 2.821052e-94 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1350020 | MtrunA17_Chr8g0341741 | 96.855 | 159 | 5 | 0 | 1 | 159 | 1 | 159 | 5.98e-113 | 322 |
| Msa1350020 | MtrunA17_Chr8g0341731 | 94.340 | 159 | 9 | 0 | 1 | 159 | 1 | 159 | 7.22e-110 | 314 |
| Msa1350020 | MtrunA17_Chr8g0341701 | 86.792 | 159 | 20 | 1 | 1 | 159 | 1 | 158 | 1.80e-100 | 290 |
| Msa1350020 | MtrunA17_Chr8g0341721 | 82.390 | 159 | 27 | 1 | 1 | 159 | 1 | 158 | 2.22e-95 | 277 |
| Msa1350020 | MtrunA17_Chr2g0330511 | 70.238 | 168 | 48 | 2 | 4 | 171 | 3 | 168 | 1.55e-84 | 249 |
| Msa1350020 | MtrunA17_Chr2g0309111 | 73.203 | 153 | 40 | 1 | 4 | 156 | 47 | 198 | 2.48e-79 | 238 |
| Msa1350020 | MtrunA17_Chr2g0330491 | 64.474 | 152 | 53 | 1 | 5 | 156 | 4 | 154 | 6.44e-70 | 213 |
| Msa1350020 | MtrunA17_Chr8g0389271 | 52.727 | 165 | 75 | 3 | 5 | 167 | 2 | 165 | 1.96e-55 | 174 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1350020 | AT1G17710.1 | 72.121 | 165 | 45 | 1 | 3 | 167 | 5 | 168 | 1.27e-86 | 255 |
| Msa1350020 | AT1G73010.1 | 70.122 | 164 | 48 | 1 | 5 | 167 | 14 | 177 | 1.72e-83 | 248 |
| Msa1350020 | AT4G29530.1 | 53.595 | 153 | 70 | 1 | 4 | 156 | 3 | 154 | 1.48e-55 | 175 |
| Msa1350020 | AT1G17710.2 | 64.228 | 123 | 43 | 1 | 45 | 167 | 15 | 136 | 3.49e-53 | 169 |
| Msa1350020 | AT4G29530.2 | 51.376 | 109 | 52 | 1 | 48 | 156 | 36 | 143 | 1.74e-32 | 116 |
Find 34 sgRNAs with CRISPR-Local
Find 97 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGAAAGTGGTTTCAAAAT+TGG | 0.194557 | tig0011160:+836 | Msa1350020:intergenic |
| AATTATTCTTTAATTTATAT+TGG | 0.260503 | tig0011160:+84 | Msa1350020:intergenic |
| AATTGGTTGATTGATGAATT+AGG | 0.292483 | tig0011160:-661 | Msa1350020:CDS |
| ATTAAATCAGCACATGCATT+AGG | 0.305553 | tig0011160:-368 | Msa1350020:CDS |
| ACAAGAAATAGAAGCTAAAT+TGG | 0.312103 | tig0011160:+811 | Msa1350020:intergenic |
| TTGATTGTGACAGTGATAAT+TGG | 0.327162 | tig0011160:-678 | Msa1350020:CDS |
| ATATATACCTTGCACATGTT+TGG | 0.342939 | tig0011160:+155 | Msa1350020:intergenic |
| GGTATTATTCTATGATGAAT+TGG | 0.354716 | tig0011160:+395 | Msa1350020:intergenic |
| ATGATGGAGTTTCATTCAAA+TGG | 0.387824 | tig0011160:-458 | Msa1350020:CDS |
| AGCTTCTTCCCACAATGCCT+TGG | 0.420250 | tig0011160:-618 | Msa1350020:CDS |
| CCTTCTTGATTAACATAACC+AGG | 0.424126 | tig0011160:+245 | Msa1350020:intergenic |
| TTTATAGTAAGAGAAGGTAT+TGG | 0.424163 | tig0011160:+897 | Msa1350020:intergenic |
| ATGCATTAGGGTGTGATTTG+AGG | 0.444003 | tig0011160:-355 | Msa1350020:CDS |
| GTGAAGCATTATTGAAATCA+TGG | 0.446007 | tig0011160:+201 | Msa1350020:intergenic |
| TTAAATCAGCACATGCATTA+GGG | 0.465493 | tig0011160:-367 | Msa1350020:CDS |
| ACAGAGTTCCAAGGCATTGT+GGG | 0.466896 | tig0011160:+610 | Msa1350020:intergenic |
| ATTAAAGAATAATTTGATGT+AGG | 0.472353 | tig0011160:-75 | Msa1350020:three_prime_UTR |
| ATCACTGTCACAATCAATGA+TGG | 0.486684 | tig0011160:+684 | Msa1350020:intergenic |
| GCATGTGCTGATTTAATAGC+AGG | 0.497078 | tig0011160:+374 | Msa1350020:intergenic |
| GCTAAATTGGTATCTGAAAG+TGG | 0.498277 | tig0011160:+824 | Msa1350020:intergenic |
| CCTGGTTATGTTAATCAAGA+AGG | 0.499879 | tig0011160:-245 | Msa1350020:CDS |
| TATACCTTGCACATGTTTGG+AGG | 0.502608 | tig0011160:+158 | Msa1350020:intergenic |
| TCAGAGATTAACACTAATCC+TGG | 0.509786 | tig0011160:-263 | Msa1350020:CDS |
| ATTATAGGACAAGATGATGA+TGG | 0.517951 | tig0011160:-474 | Msa1350020:intron |
| TATGATACAGAGAGTGAGAG+AGG | 0.521370 | tig0011160:+872 | Msa1350020:intergenic |
| GAGGTATTTATAGTAAGAGA+AGG | 0.550239 | tig0011160:+891 | Msa1350020:intergenic |
| GACAGAGTTCCAAGGCATTG+TGG | 0.554836 | tig0011160:+609 | Msa1350020:intergenic |
| GATTTCAATAATGCTTCACA+TGG | 0.591506 | tig0011160:-197 | Msa1350020:CDS |
| GCATTATTGAAATCATGGTA+AGG | 0.593751 | tig0011160:+206 | Msa1350020:intergenic |
| TATATTGGCATAAAATCTAG+TGG | 0.594869 | tig0011160:+99 | Msa1350020:intergenic |
| ATACCTTGCACATGTTTGGA+GGG | 0.605181 | tig0011160:+159 | Msa1350020:intergenic |
| CTGCCCTCCAAACATGTGCA+AGG | 0.634726 | tig0011160:-162 | Msa1350020:CDS |
| AATGCCTTGGAACTCTGTCA+TGG | 0.634751 | tig0011160:-605 | Msa1350020:intron |
| CATACCATGACAGAGTTCCA+AGG | 0.665251 | tig0011160:+601 | Msa1350010:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATATATGATTAACTTGTT+TGG | - | tig0011160:466-485 | Msa1350020:CDS | 15.0% |
| !! | ATTAAAGAATAATTTGATGT+AGG | - | tig0011160:895-914 | Msa1350020:five_prime_UTR | 15.0% |
| !!! | TAATATATGATTAACTTGTT+TGG | - | tig0011160:466-485 | Msa1350020:CDS | 15.0% |
| !!! | TGCAAGGTATATATTTTTTT+GGG | - | tig0011160:824-843 | Msa1350020:five_prime_UTR | 20.0% |
| !!! | TGCAAGGTATATATTTTTTT+GGG | - | tig0011160:824-843 | Msa1350020:five_prime_UTR | 20.0% |
| ! | ACAAGAAATAGAAGCTAAAT+TGG | + | tig0011160:162-181 | None:intergenic | 25.0% |
| ! | AATTGGTTGATTGATGAATT+AGG | - | tig0011160:309-328 | Msa1350020:CDS | 25.0% |
| !!! | ATGATTAACTTGTTTGGTTT+TGG | - | tig0011160:472-491 | Msa1350020:intron | 25.0% |
| !!! | TTGTTTGGTTTTGGAATTAT+AGG | - | tig0011160:481-500 | Msa1350020:intron | 25.0% |
| !!! | AACTTTTTCAATCTCTTCAA+TGG | + | tig0011160:543-562 | Msa1350020:intergenic | 25.0% |
| ! | AGATTGAAAAAGTTCTTCAA+AGG | - | tig0011160:549-568 | Msa1350020:intron | 25.0% |
| ! | GGTATTATTCTATGATGAAT+TGG | + | tig0011160:578-597 | Msa1350020:intergenic | 25.0% |
| !!! | TGAAACTATTTTGAAGCATT+TGG | - | tig0011160:667-686 | Msa1350020:CDS | 25.0% |
| !!! | GAAACTATTTTGAAGCATTT+GGG | - | tig0011160:668-687 | Msa1350020:CDS | 25.0% |
| !!! | GTGCAAGGTATATATTTTTT+TGG | - | tig0011160:823-842 | Msa1350020:five_prime_UTR | 25.0% |
| ! | TATATTGGCATAAAATCTAG+TGG | + | tig0011160:874-893 | Msa1350020:intergenic | 25.0% |
| ! | ACAAGAAATAGAAGCTAAAT+TGG | + | tig0011160:162-181 | Msa1350020:intergenic | 25.0% |
| ! | AATTGGTTGATTGATGAATT+AGG | - | tig0011160:309-328 | Msa1350020:CDS | 25.0% |
| !!! | ATGATTAACTTGTTTGGTTT+TGG | - | tig0011160:472-491 | Msa1350020:intron | 25.0% |
| !!! | TTGTTTGGTTTTGGAATTAT+AGG | - | tig0011160:481-500 | Msa1350020:intron | 25.0% |
| !!! | AACTTTTTCAATCTCTTCAA+TGG | + | tig0011160:543-562 | Msa1350020:intergenic | 25.0% |
| ! | AGATTGAAAAAGTTCTTCAA+AGG | - | tig0011160:549-568 | Msa1350020:intron | 25.0% |
| ! | GGTATTATTCTATGATGAAT+TGG | + | tig0011160:578-597 | Msa1350020:intergenic | 25.0% |
| !!! | TGAAACTATTTTGAAGCATT+TGG | - | tig0011160:667-686 | Msa1350020:CDS | 25.0% |
| !!! | GAAACTATTTTGAAGCATTT+GGG | - | tig0011160:668-687 | Msa1350020:CDS | 25.0% |
| !!! | GTGCAAGGTATATATTTTTT+TGG | - | tig0011160:823-842 | Msa1350020:five_prime_UTR | 25.0% |
| ! | TATATTGGCATAAAATCTAG+TGG | + | tig0011160:874-893 | Msa1350020:intergenic | 25.0% |
| ! | GAGGTATTTATAGTAAGAGA+AGG | + | tig0011160:82-101 | None:intergenic | 30.0% |
| !!! | TTCAAAATTGGTTTTTGGCT+TGG | + | tig0011160:125-144 | None:intergenic | 30.0% |
| !!! | GTGGTTTCAAAATTGGTTTT+TGG | + | tig0011160:130-149 | None:intergenic | 30.0% |
| TCTGAAAGTGGTTTCAAAAT+TGG | + | tig0011160:137-156 | None:intergenic | 30.0% | |
| !!! | TGAACCAGTTTTTTCTTTCT+GGG | - | tig0011160:181-200 | Msa1350020:CDS | 30.0% |
| !!! | TAGTCATTTTTCTCTTTGAG+AGG | + | tig0011160:233-252 | Msa1350020:intergenic | 30.0% |
| TTGATTGTGACAGTGATAAT+TGG | - | tig0011160:292-311 | Msa1350020:CDS | 30.0% | |
| ATTATAGGACAAGATGATGA+TGG | - | tig0011160:496-515 | Msa1350020:intron | 30.0% | |
| ! | ATGATGGAGTTTCATTCAAA+TGG | - | tig0011160:512-531 | Msa1350020:intron | 30.0% |
| ATTAAATCAGCACATGCATT+AGG | - | tig0011160:602-621 | Msa1350020:intron | 30.0% | |
| TTAAATCAGCACATGCATTA+GGG | - | tig0011160:603-622 | Msa1350020:intron | 30.0% | |
| GCATTATTGAAATCATGGTA+AGG | + | tig0011160:767-786 | Msa1350020:intergenic | 30.0% | |
| ! | GTGAAGCATTATTGAAATCA+TGG | + | tig0011160:772-791 | Msa1350020:intergenic | 30.0% |
| GATTTCAATAATGCTTCACA+TGG | - | tig0011160:773-792 | Msa1350020:five_prime_UTR | 30.0% | |
| ATATATACCTTGCACATGTT+TGG | + | tig0011160:818-837 | Msa1350020:intergenic | 30.0% | |
| ! | GAGGTATTTATAGTAAGAGA+AGG | + | tig0011160:82-101 | Msa1350020:intergenic | 30.0% |
| !!! | TTCAAAATTGGTTTTTGGCT+TGG | + | tig0011160:125-144 | Msa1350020:intergenic | 30.0% |
| !!! | GTGGTTTCAAAATTGGTTTT+TGG | + | tig0011160:130-149 | Msa1350020:intergenic | 30.0% |
| TCTGAAAGTGGTTTCAAAAT+TGG | + | tig0011160:137-156 | Msa1350020:intergenic | 30.0% | |
| !!! | TGAACCAGTTTTTTCTTTCT+GGG | - | tig0011160:181-200 | Msa1350020:CDS | 30.0% |
| !!! | TAGTCATTTTTCTCTTTGAG+AGG | + | tig0011160:233-252 | Msa1350020:intergenic | 30.0% |
| TTGATTGTGACAGTGATAAT+TGG | - | tig0011160:292-311 | Msa1350020:CDS | 30.0% | |
| ATTATAGGACAAGATGATGA+TGG | - | tig0011160:496-515 | Msa1350020:intron | 30.0% | |
| ! | ATGATGGAGTTTCATTCAAA+TGG | - | tig0011160:512-531 | Msa1350020:intron | 30.0% |
| ATTAAATCAGCACATGCATT+AGG | - | tig0011160:602-621 | Msa1350020:intron | 30.0% | |
| TTAAATCAGCACATGCATTA+GGG | - | tig0011160:603-622 | Msa1350020:intron | 30.0% | |
| GCATTATTGAAATCATGGTA+AGG | + | tig0011160:767-786 | Msa1350020:intergenic | 30.0% | |
| ! | GTGAAGCATTATTGAAATCA+TGG | + | tig0011160:772-791 | Msa1350020:intergenic | 30.0% |
| GATTTCAATAATGCTTCACA+TGG | - | tig0011160:773-792 | Msa1350020:five_prime_UTR | 30.0% | |
| ATATATACCTTGCACATGTT+TGG | + | tig0011160:818-837 | Msa1350020:intergenic | 30.0% | |
| GCTAAATTGGTATCTGAAAG+TGG | + | tig0011160:149-168 | None:intergenic | 35.0% | |
| !!! | GTGAACCAGTTTTTTCTTTC+TGG | - | tig0011160:180-199 | Msa1350020:CDS | 35.0% |
| ATGACCCAGAAAGAAAAAAC+TGG | + | tig0011160:188-207 | Msa1350020:intergenic | 35.0% | |
| ATCACTGTCACAATCAATGA+TGG | + | tig0011160:289-308 | Msa1350020:intergenic | 35.0% | |
| TACAAAACAGAGCACATGAA+TGG | + | tig0011160:404-423 | Msa1350020:intergenic | 35.0% | |
| TCAGAGATTAACACTAATCC+TGG | - | tig0011160:707-726 | Msa1350020:CDS | 35.0% | |
| CCTTCTTGATTAACATAACC+AGG | + | tig0011160:728-747 | Msa1350020:intergenic | 35.0% | |
| CCTGGTTATGTTAATCAAGA+AGG | - | tig0011160:725-744 | Msa1350020:CDS | 35.0% | |
| GCTAAATTGGTATCTGAAAG+TGG | + | tig0011160:149-168 | Msa1350020:intergenic | 35.0% | |
| !!! | GTGAACCAGTTTTTTCTTTC+TGG | - | tig0011160:180-199 | Msa1350020:CDS | 35.0% |
| ATGACCCAGAAAGAAAAAAC+TGG | + | tig0011160:188-207 | Msa1350020:intergenic | 35.0% | |
| ATCACTGTCACAATCAATGA+TGG | + | tig0011160:289-308 | Msa1350020:intergenic | 35.0% | |
| TACAAAACAGAGCACATGAA+TGG | + | tig0011160:404-423 | Msa1350020:intergenic | 35.0% | |
| TCAGAGATTAACACTAATCC+TGG | - | tig0011160:707-726 | Msa1350020:CDS | 35.0% | |
| CCTTCTTGATTAACATAACC+AGG | + | tig0011160:728-747 | Msa1350020:intergenic | 35.0% | |
| CCTGGTTATGTTAATCAAGA+AGG | - | tig0011160:725-744 | Msa1350020:CDS | 35.0% | |
| TATGATACAGAGAGTGAGAG+AGG | + | tig0011160:101-120 | None:intergenic | 40.0% | |
| !! | GCATGTGCTGATTTAATAGC+AGG | + | tig0011160:599-618 | Msa1350020:intergenic | 40.0% |
| ATGCATTAGGGTGTGATTTG+AGG | - | tig0011160:615-634 | Msa1350020:CDS | 40.0% | |
| ATACCTTGCACATGTTTGGA+GGG | + | tig0011160:814-833 | Msa1350020:intergenic | 40.0% | |
| TATACCTTGCACATGTTTGG+AGG | + | tig0011160:815-834 | Msa1350020:intergenic | 40.0% | |
| TATGATACAGAGAGTGAGAG+AGG | + | tig0011160:101-120 | Msa1350020:intergenic | 40.0% | |
| !! | GCATGTGCTGATTTAATAGC+AGG | + | tig0011160:599-618 | Msa1350020:intergenic | 40.0% |
| ATGCATTAGGGTGTGATTTG+AGG | - | tig0011160:615-634 | Msa1350020:CDS | 40.0% | |
| ATACCTTGCACATGTTTGGA+GGG | + | tig0011160:814-833 | Msa1350020:intergenic | 40.0% | |
| TATACCTTGCACATGTTTGG+AGG | + | tig0011160:815-834 | Msa1350020:intergenic | 40.0% | |
| !! | ACAGAGTTCCAAGGCATTGT+GGG | + | tig0011160:363-382 | Msa1350020:intergenic | 45.0% |
| AATGCCTTGGAACTCTGTCA+TGG | - | tig0011160:365-384 | Msa1350020:CDS | 45.0% | |
| CATACCATGACAGAGTTCCA+AGG | + | tig0011160:372-391 | Msa1350020:intergenic | 45.0% | |
| !! | ACAGAGTTCCAAGGCATTGT+GGG | + | tig0011160:363-382 | Msa1350020:intergenic | 45.0% |
| AATGCCTTGGAACTCTGTCA+TGG | - | tig0011160:365-384 | Msa1350020:CDS | 45.0% | |
| CATACCATGACAGAGTTCCA+AGG | + | tig0011160:372-391 | Msa1350020:intergenic | 45.0% | |
| !!! | AATTATTCTTTAATTTATAT+TGG | + | tig0011160:889-908 | Msa1350020:intergenic | 5.0% |
| !!! | AATTATTCTTTAATTTATAT+TGG | + | tig0011160:889-908 | Msa1350020:intergenic | 5.0% |
| AGCTTCTTCCCACAATGCCT+TGG | - | tig0011160:352-371 | Msa1350020:CDS | 50.0% | |
| !! | GACAGAGTTCCAAGGCATTG+TGG | + | tig0011160:364-383 | Msa1350020:intergenic | 50.0% |
| AGCTTCTTCCCACAATGCCT+TGG | - | tig0011160:352-371 | Msa1350020:CDS | 50.0% | |
| !! | GACAGAGTTCCAAGGCATTG+TGG | + | tig0011160:364-383 | Msa1350020:intergenic | 50.0% |
| CTGCCCTCCAAACATGTGCA+AGG | - | tig0011160:808-827 | Msa1350020:five_prime_UTR | 55.0% | |
| CTGCCCTCCAAACATGTGCA+AGG | - | tig0011160:808-827 | Msa1350020:five_prime_UTR | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0011160 | gene | 75 | 917 | 75 | ID=Msa1350020;Name=Msa1350020 |
| tig0011160 | mRNA | 75 | 917 | 75 | ID=Msa1350020-mRNA-1;Parent=Msa1350020;Name=Msa1350020-mRNA-1;_AED=0.02;_eAED=0.02;_QI=171|1|1|1|1|1|2|40|171 |
| tig0011160 | exon | 75 | 489 | 75 | ID=Msa1350020-mRNA-1:exon:7205;Parent=Msa1350020-mRNA-1 |
| tig0011160 | exon | 606 | 917 | 606 | ID=Msa1350020-mRNA-1:exon:7204;Parent=Msa1350020-mRNA-1 |
| tig0011160 | five_prime_UTR | 747 | 917 | 747 | ID=Msa1350020-mRNA-1:five_prime_utr;Parent=Msa1350020-mRNA-1 |
| tig0011160 | CDS | 606 | 746 | 606 | ID=Msa1350020-mRNA-1:cds;Parent=Msa1350020-mRNA-1 |
| tig0011160 | CDS | 115 | 489 | 115 | ID=Msa1350020-mRNA-1:cds;Parent=Msa1350020-mRNA-1 |
| tig0011160 | three_prime_UTR | 75 | 114 | 75 | ID=Msa1350020-mRNA-1:three_prime_utr;Parent=Msa1350020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
