Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001848.t1 | XP_003612158.1 | 82.7 | 243 | 32 | 2 | 1 | 237 | 22 | 260 | 1.50E-104 | 389 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001848.t1 | Q6YBV1 | 44.9 | 234 | 96 | 6 | 4 | 227 | 35 | 245 | 2.2e-43 | 177.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001848.t1 | B7UCW4 | 82.7 | 243 | 32 | 2 | 1 | 237 | 22 | 260 | 1.1e-104 | 389.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene001848.t1 | TF | HB-WOX |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001848.t1 | MTR_5g021930 | 90.947 | 243 | 12 | 3 | 1 | 237 | 22 | 260 | 8.07e-163 | 452 |
| MS.gene001848.t1 | MTR_4g084550 | 62.687 | 67 | 24 | 1 | 5 | 71 | 60 | 125 | 4.20e-25 | 97.8 |
| MS.gene001848.t1 | MTR_8g107210 | 67.188 | 64 | 20 | 1 | 8 | 71 | 95 | 157 | 4.91e-24 | 98.6 |
| MS.gene001848.t1 | MTR_5g081990 | 58.108 | 74 | 27 | 2 | 9 | 79 | 33 | 105 | 5.80e-24 | 94.7 |
| MS.gene001848.t1 | MTR_4g063735 | 65.079 | 63 | 21 | 1 | 9 | 71 | 25 | 86 | 1.98e-22 | 92.8 |
| MS.gene001848.t1 | MTR_7g060630 | 64.062 | 64 | 22 | 1 | 8 | 71 | 7 | 69 | 2.41e-22 | 91.3 |
| MS.gene001848.t1 | MTR_1g019130 | 60.938 | 64 | 24 | 1 | 8 | 71 | 89 | 151 | 1.89e-21 | 89.7 |
| MS.gene001848.t1 | MTR_1g019130 | 60.938 | 64 | 24 | 1 | 8 | 71 | 89 | 151 | 2.05e-21 | 89.4 |
| MS.gene001848.t1 | MTR_8g095580 | 74.468 | 47 | 12 | 0 | 25 | 71 | 97 | 143 | 3.71e-18 | 79.0 |
| MS.gene001848.t1 | MTR_3g088485 | 72.340 | 47 | 13 | 0 | 25 | 71 | 95 | 141 | 5.22e-18 | 78.6 |
| MS.gene001848.t1 | MTR_7g025010 | 44.118 | 68 | 37 | 1 | 5 | 72 | 43 | 109 | 3.37e-14 | 71.6 |
| MS.gene001848.t1 | MTR_2g015000 | 43.478 | 69 | 38 | 1 | 3 | 71 | 49 | 116 | 8.34e-14 | 70.5 |
| MS.gene001848.t1 | MTR_4g088070 | 43.750 | 64 | 35 | 1 | 7 | 70 | 27 | 89 | 2.40e-13 | 68.9 |
| MS.gene001848.t1 | MTR_7g066060 | 84.848 | 33 | 5 | 0 | 54 | 86 | 465 | 497 | 2.28e-12 | 66.2 |
| MS.gene001848.t1 | MTR_4g088080 | 42.188 | 64 | 36 | 1 | 7 | 70 | 38 | 100 | 1.51e-11 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001848.t1 | AT2G17950 | 40.000 | 260 | 102 | 11 | 4 | 232 | 33 | 269 | 4.48e-46 | 155 |
| MS.gene001848.t1 | AT3G18010 | 67.188 | 64 | 20 | 1 | 8 | 71 | 75 | 137 | 3.88e-24 | 99.0 |
| MS.gene001848.t1 | AT5G59340 | 65.152 | 66 | 22 | 1 | 6 | 71 | 11 | 75 | 5.95e-24 | 96.7 |
| MS.gene001848.t1 | AT5G05770 | 60.870 | 69 | 26 | 1 | 9 | 77 | 29 | 96 | 8.82e-23 | 90.1 |
| MS.gene001848.t1 | AT3G11260 | 63.492 | 63 | 22 | 1 | 9 | 71 | 24 | 85 | 1.03e-22 | 91.7 |
| MS.gene001848.t1 | AT2G28610 | 62.500 | 64 | 23 | 1 | 8 | 71 | 7 | 69 | 1.23e-21 | 90.1 |
| MS.gene001848.t1 | AT1G46480 | 60.938 | 64 | 24 | 1 | 8 | 71 | 89 | 151 | 1.44e-21 | 89.0 |
| MS.gene001848.t1 | AT1G46480 | 60.938 | 64 | 24 | 1 | 8 | 71 | 89 | 151 | 8.39e-21 | 88.2 |
| MS.gene001848.t1 | AT2G01500 | 64.286 | 56 | 19 | 1 | 9 | 64 | 61 | 115 | 3.69e-19 | 84.3 |
| MS.gene001848.t1 | AT2G33880 | 44.286 | 70 | 38 | 1 | 3 | 72 | 49 | 117 | 2.12e-14 | 72.0 |
| MS.gene001848.t1 | AT5G45980 | 49.231 | 65 | 32 | 1 | 7 | 71 | 53 | 116 | 2.15e-14 | 71.6 |
| MS.gene001848.t1 | AT2G33880 | 44.286 | 70 | 38 | 1 | 3 | 72 | 49 | 117 | 2.20e-14 | 72.0 |
Find 44 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCATCCTAAGTGAGGGTTTA+TGG | 0.166513 | 6.4:-31402466 | None:intergenic |
| AAAGGGAGGGTTTCAATTTC+AGG | 0.186091 | 6.4:-31402600 | None:intergenic |
| ATGTTCTTCTGCTGATAATA+TGG | 0.223760 | 6.4:+31401915 | MS.gene001848:CDS |
| CTATTATTGCTGCTGCTAAT+TGG | 0.230551 | 6.4:+31401693 | MS.gene001848:CDS |
| CTAGAGAAAGACAGAATAAA+AGG | 0.267042 | 6.4:+31401615 | MS.gene001848:CDS |
| TTAGCATAAGCTGAAGAATA+TGG | 0.320661 | 6.4:-31402507 | None:intergenic |
| TCTTCCATGATTTCTTCATT+AGG | 0.332083 | 6.4:-31402549 | None:intergenic |
| TATGAACAAGGACAAGAAAA+TGG | 0.342235 | 6.4:+31402573 | MS.gene001848:CDS |
| TCACCATGCATAGGGAATAA+AGG | 0.377353 | 6.4:-31402618 | None:intergenic |
| CTCTGAATCTGTTCAACACT+TGG | 0.394597 | 6.4:-31401518 | None:intergenic |
| ATTCTTATCTGATCTGTTGT+TGG | 0.397466 | 6.4:-31401458 | None:intergenic |
| TTTCCATATAGTTACCAATC+TGG | 0.403343 | 6.4:-31401948 | None:intergenic |
| GCAATAATAGTATTGTTGTT+TGG | 0.407919 | 6.4:-31401680 | None:intergenic |
| CACCATGCATAGGGAATAAA+GGG | 0.416329 | 6.4:-31402617 | None:intergenic |
| TCTGCTAGGTTAAGACAGTA+TGG | 0.419676 | 6.4:+31401545 | MS.gene001848:CDS |
| TGATGTTGTTCATGATGATC+AGG | 0.428226 | 6.4:-31401719 | None:intergenic |
| AGGCCAGATTGGTAACTATA+TGG | 0.432080 | 6.4:+31401945 | MS.gene001848:CDS |
| GTTTGGTGCTCTTTGAATGA+TGG | 0.443486 | 6.4:-31401663 | None:intergenic |
| TTTGGTGCTCTTTGAATGAT+GGG | 0.453249 | 6.4:-31401662 | None:intergenic |
| AAGACCTAATGAAGAAATCA+TGG | 0.463541 | 6.4:+31402545 | MS.gene001848:CDS |
| AAGGATCTTTACTACAACAA+TGG | 0.474991 | 6.4:+31401485 | MS.gene001848:CDS |
| ATGGTTACTGCAGGCCAGAT+TGG | 0.481591 | 6.4:+31401934 | MS.gene001848:CDS |
| AACCCTCACTTAGGATGGAT+TGG | 0.494244 | 6.4:+31402471 | MS.gene001848:CDS |
| AGTTAGATGAGTTTCATTTG+TGG | 0.497892 | 6.4:-31402665 | None:intergenic |
| AGACAGTATGGTAAGATTGA+AGG | 0.507784 | 6.4:+31401557 | MS.gene001848:CDS |
| GGATGTAGCAGCAGTCAAGT+TGG | 0.519817 | 6.4:+31402438 | MS.gene001848:CDS |
| TAGGAGTGCACAATATCAGC+TGG | 0.529304 | 6.4:+31402417 | MS.gene001848:intron |
| CCATAAACCCTCACTTAGGA+TGG | 0.538741 | 6.4:+31402466 | MS.gene001848:CDS |
| GAATGTCTTCACCATGCATA+GGG | 0.538890 | 6.4:-31402626 | None:intergenic |
| CTCCCTTTATTCCCTATGCA+TGG | 0.543247 | 6.4:+31402615 | MS.gene001848:CDS |
| AAAATTGTAATTAGTATGGT+TGG | 0.552762 | 6.4:-31401768 | None:intergenic |
| ATGCATGGTGAAGACATTCA+TGG | 0.571277 | 6.4:+31402630 | MS.gene001848:CDS |
| TGAATGTCTTCACCATGCAT+AGG | 0.574747 | 6.4:-31402627 | None:intergenic |
| GCTGATAATATGGTTACTGC+AGG | 0.581156 | 6.4:+31401925 | MS.gene001848:CDS |
| AGTACCATAAACCCTCACTT+AGG | 0.599826 | 6.4:+31402462 | MS.gene001848:CDS |
| AGATTCAGAGAATCTCTGCT+AGG | 0.608727 | 6.4:+31401531 | MS.gene001848:CDS |
| GACCAATCCATCCTAAGTGA+GGG | 0.618647 | 6.4:-31402473 | None:intergenic |
| TGACCAATCCATCCTAAGTG+AGG | 0.637357 | 6.4:-31402474 | None:intergenic |
| CATGCATAGGGAATAAAGGG+AGG | 0.658861 | 6.4:-31402614 | None:intergenic |
| ATGCATAGGGAATAAAGGGA+GGG | 0.659824 | 6.4:-31402613 | None:intergenic |
| ATCATGGAAGAATATGAACA+AGG | 0.690834 | 6.4:+31402561 | MS.gene001848:CDS |
| GCAGCAGACAAAGTAGAACA+AGG | 0.695509 | 6.4:+31401429 | MS.gene001848:CDS |
| GCAGACAAAGTAGAACAAGG+TGG | 0.752615 | 6.4:+31401432 | MS.gene001848:CDS |
| CATGGTGAAGACATTCATGG+TGG | 0.793972 | 6.4:+31402633 | MS.gene001848:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAAAAAAAAGTAACAAAT+TGG | + | chr6.4:31401825-31401844 | MS.gene001848:intron | 15.0% |
| !! | ATGAAAAATTGTAATTAGTA+TGG | - | chr6.4:31401775-31401794 | None:intergenic | 15.0% |
| !!! | ATTAAAACTCTACTTTTTTT+AGG | + | chr6.4:31402314-31402333 | MS.gene001848:intron | 15.0% |
| !!! | TCTTTTATTTAATAACCAAA+AGG | + | chr6.4:31402130-31402149 | MS.gene001848:intron | 15.0% |
| !!! | TTTTTAATTCTTAGTTTATG+AGG | - | chr6.4:31402190-31402209 | None:intergenic | 15.0% |
| !!! | TTTTTTTTTTTCTTCTTCTT+AGG | + | chr6.4:31402398-31402417 | MS.gene001848:intron | 15.0% |
| !! | AAAATTGTAATTAGTATGGT+TGG | - | chr6.4:31401771-31401790 | None:intergenic | 20.0% |
| !! | ACATACACAAGAATTAATAT+AGG | - | chr6.4:31401871-31401890 | None:intergenic | 20.0% |
| !! | ATTCTTGTGTATGTTTATTT+AGG | + | chr6.4:31401877-31401896 | MS.gene001848:intron | 20.0% |
| !! | TTCTTGTGTATGTTTATTTA+GGG | + | chr6.4:31401878-31401897 | MS.gene001848:intron | 20.0% |
| !!! | TTCTTATTATGGAAATTTTC+TGG | - | chr6.4:31402161-31402180 | None:intergenic | 20.0% |
| !!! | TTTTTTTTCTTGTCTCAAAA+AGG | - | chr6.4:31401816-31401835 | None:intergenic | 20.0% |
| ! | TTTCTATATCAAATCTCACA+TGG | - | chr6.4:31402081-31402100 | None:intergenic | 25.0% |
| !! | AATTACAATTTTTCATCTGC+TGG | + | chr6.4:31401779-31401798 | MS.gene001848:CDS | 25.0% |
| !! | ACTATATGGAAAAGAGTTTT+AGG | + | chr6.4:31401959-31401978 | MS.gene001848:CDS | 25.0% |
| !! | AGATCAGATAAGAATTTTGA+AGG | + | chr6.4:31401466-31401485 | MS.gene001848:CDS | 25.0% |
| !! | CTATATGGAAAAGAGTTTTA+GGG | + | chr6.4:31401960-31401979 | MS.gene001848:CDS | 25.0% |
| !! | GCAATAATAGTATTGTTGTT+TGG | - | chr6.4:31401683-31401702 | None:intergenic | 25.0% |
| AAGACCTAATGAAGAAATCA+TGG | + | chr6.4:31402545-31402564 | MS.gene001848:CDS | 30.0% | |
| AAGGATCTTTACTACAACAA+TGG | + | chr6.4:31401485-31401504 | MS.gene001848:CDS | 30.0% | |
| ATCATGGAAGAATATGAACA+AGG | + | chr6.4:31402561-31402580 | MS.gene001848:CDS | 30.0% | |
| ATGTTCTTCTGCTGATAATA+TGG | + | chr6.4:31401915-31401934 | MS.gene001848:CDS | 30.0% | |
| ATTCTTATCTGATCTGTTGT+TGG | - | chr6.4:31401461-31401480 | None:intergenic | 30.0% | |
| CTAGAGAAAGACAGAATAAA+AGG | + | chr6.4:31401615-31401634 | MS.gene001848:CDS | 30.0% | |
| TATGAACAAGGACAAGAAAA+TGG | + | chr6.4:31402573-31402592 | MS.gene001848:CDS | 30.0% | |
| TCTTCCATGATTTCTTCATT+AGG | - | chr6.4:31402552-31402571 | None:intergenic | 30.0% | |
| TGAGGTTGTTCTTCTTATTA+TGG | - | chr6.4:31402172-31402191 | None:intergenic | 30.0% | |
| TTAGCATAAGCTGAAGAATA+TGG | - | chr6.4:31402510-31402529 | None:intergenic | 30.0% | |
| TTTCCATATAGTTACCAATC+TGG | - | chr6.4:31401951-31401970 | None:intergenic | 30.0% | |
| ! | AAGGCAAAAATGTCTTTTAC+TGG | + | chr6.4:31401576-31401595 | MS.gene001848:CDS | 30.0% |
| ! | AATTTTCTGGATTGTCCTTT+TGG | - | chr6.4:31402148-31402167 | None:intergenic | 30.0% |
| !! | ATGAAAACTATGATGGATCA+TGG | - | chr6.4:31402054-31402073 | None:intergenic | 30.0% |
| AGACAGTATGGTAAGATTGA+AGG | + | chr6.4:31401557-31401576 | MS.gene001848:CDS | 35.0% | |
| CTATTATTGCTGCTGCTAAT+TGG | + | chr6.4:31401693-31401712 | MS.gene001848:CDS | 35.0% | |
| TAGTGAAACTGAACTCTTGT+TGG | - | chr6.4:31402259-31402278 | None:intergenic | 35.0% | |
| TGATGTTGTTCATGATGATC+AGG | - | chr6.4:31401722-31401741 | None:intergenic | 35.0% | |
| TGGATGCATGAAAACTATGA+TGG | - | chr6.4:31402061-31402080 | None:intergenic | 35.0% | |
| TGGATTGAATGCATTGCAAA+GGG | - | chr6.4:31402034-31402053 | None:intergenic | 35.0% | |
| ! | ATGGATTGAATGCATTGCAA+AGG | - | chr6.4:31402035-31402054 | None:intergenic | 35.0% |
| !! | TTTGGTGCTCTTTGAATGAT+GGG | - | chr6.4:31401665-31401684 | None:intergenic | 35.0% |
| AAAGGGAGGGTTTCAATTTC+AGG | - | chr6.4:31402603-31402622 | None:intergenic | 40.0% | |
| AGATTCAGAGAATCTCTGCT+AGG | + | chr6.4:31401531-31401550 | MS.gene001848:CDS | 40.0% | |
| AGTACCATAAACCCTCACTT+AGG | + | chr6.4:31402462-31402481 | MS.gene001848:CDS | 40.0% | |
| ATGCATAGGGAATAAAGGGA+GGG | - | chr6.4:31402616-31402635 | None:intergenic | 40.0% | |
| ATGCATGGTGAAGACATTCA+TGG | + | chr6.4:31402630-31402649 | MS.gene001848:CDS | 40.0% | |
| CACCATGCATAGGGAATAAA+GGG | - | chr6.4:31402620-31402639 | None:intergenic | 40.0% | |
| CTCTGAATCTGTTCAACACT+TGG | - | chr6.4:31401521-31401540 | None:intergenic | 40.0% | |
| GAATGTCTTCACCATGCATA+GGG | - | chr6.4:31402629-31402648 | None:intergenic | 40.0% | |
| GCTGATAATATGGTTACTGC+AGG | + | chr6.4:31401925-31401944 | MS.gene001848:CDS | 40.0% | |
| TCACCATGCATAGGGAATAA+AGG | - | chr6.4:31402621-31402640 | None:intergenic | 40.0% | |
| TCTGCTAGGTTAAGACAGTA+TGG | + | chr6.4:31401545-31401564 | MS.gene001848:CDS | 40.0% | |
| TGAAACTGAACTCTTGTTGG+TGG | - | chr6.4:31402256-31402275 | None:intergenic | 40.0% | |
| TGAATGTCTTCACCATGCAT+AGG | - | chr6.4:31402630-31402649 | None:intergenic | 40.0% | |
| ! | AGGCCAGATTGGTAACTATA+TGG | + | chr6.4:31401945-31401964 | MS.gene001848:CDS | 40.0% |
| !! | GTTTGGTGCTCTTTGAATGA+TGG | - | chr6.4:31401666-31401685 | None:intergenic | 40.0% |
| AACCCTCACTTAGGATGGAT+TGG | + | chr6.4:31402471-31402490 | MS.gene001848:CDS | 45.0% | |
| CATGCATAGGGAATAAAGGG+AGG | - | chr6.4:31402617-31402636 | None:intergenic | 45.0% | |
| CATGGTGAAGACATTCATGG+TGG | + | chr6.4:31402633-31402652 | MS.gene001848:CDS | 45.0% | |
| CCATAAACCCTCACTTAGGA+TGG | + | chr6.4:31402466-31402485 | MS.gene001848:CDS | 45.0% | |
| CCATCCTAAGTGAGGGTTTA+TGG | - | chr6.4:31402469-31402488 | None:intergenic | 45.0% | |
| CTCCCTTTATTCCCTATGCA+TGG | + | chr6.4:31402615-31402634 | MS.gene001848:CDS | 45.0% | |
| GACCAATCCATCCTAAGTGA+GGG | - | chr6.4:31402476-31402495 | None:intergenic | 45.0% | |
| GCAGACAAAGTAGAACAAGG+TGG | + | chr6.4:31401432-31401451 | MS.gene001848:CDS | 45.0% | |
| GCAGCAGACAAAGTAGAACA+AGG | + | chr6.4:31401429-31401448 | MS.gene001848:CDS | 45.0% | |
| TGACCAATCCATCCTAAGTG+AGG | - | chr6.4:31402477-31402496 | None:intergenic | 45.0% | |
| ! | TAGGAGTGCACAATATCAGC+TGG | + | chr6.4:31402417-31402436 | MS.gene001848:intron | 45.0% |
| !! | AGAAAAAAAAAAAATTAAAA+TGG | - | chr6.4:31402391-31402410 | None:intergenic | 5.0% |
| ATGGTTACTGCAGGCCAGAT+TGG | + | chr6.4:31401934-31401953 | MS.gene001848:CDS | 50.0% | |
| GGATGTAGCAGCAGTCAAGT+TGG | + | chr6.4:31402438-31402457 | MS.gene001848:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 31401425 | 31402674 | 31401425 | ID=MS.gene001848 |
| chr6.4 | mRNA | 31401425 | 31402674 | 31401425 | ID=MS.gene001848.t1;Parent=MS.gene001848 |
| chr6.4 | exon | 31401425 | 31401800 | 31401425 | ID=MS.gene001848.t1.exon1;Parent=MS.gene001848.t1 |
| chr6.4 | CDS | 31401425 | 31401800 | 31401425 | ID=cds.MS.gene001848.t1;Parent=MS.gene001848.t1 |
| chr6.4 | exon | 31401899 | 31401981 | 31401899 | ID=MS.gene001848.t1.exon2;Parent=MS.gene001848.t1 |
| chr6.4 | CDS | 31401899 | 31401981 | 31401899 | ID=cds.MS.gene001848.t1;Parent=MS.gene001848.t1 |
| chr6.4 | exon | 31402420 | 31402674 | 31402420 | ID=MS.gene001848.t1.exon3;Parent=MS.gene001848.t1 |
| chr6.4 | CDS | 31402420 | 31402674 | 31402420 | ID=cds.MS.gene001848.t1;Parent=MS.gene001848.t1 |
| Gene Sequence |
| Protein sequence |
