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.gene069446.t1 | XP_003620175.1 | 95.8 | 214 | 8 | 1 | 1 | 214 | 1 | 213 | 3.90E-115 | 424.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069446.t1 | P13087 | 45.1 | 215 | 104 | 5 | 6 | 213 | 9 | 216 | 5.8e-43 | 175.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069446.t1 | Q6ISX8 | 95.8 | 214 | 8 | 1 | 1 | 214 | 1 | 213 | 2.8e-115 | 424.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05227 | MS.gene069446 | 0.859968 | 2.86E-63 | -1.69E-46 |
| MS.gene05228 | MS.gene069446 | 0.922861 | 5.67E-89 | -1.69E-46 |
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.gene069446.t1 | MTR_6g078140 | 95.794 | 214 | 8 | 1 | 1 | 214 | 1 | 213 | 4.17e-153 | 423 |
| MS.gene069446.t1 | MTR_6g078120 | 95.327 | 214 | 9 | 1 | 1 | 214 | 1 | 213 | 4.24e-135 | 377 |
| MS.gene069446.t1 | MTR_6g078280 | 62.500 | 200 | 68 | 4 | 18 | 214 | 17 | 212 | 3.07e-83 | 246 |
| MS.gene069446.t1 | MTR_6g078290 | 56.744 | 215 | 89 | 4 | 1 | 214 | 1 | 212 | 4.05e-78 | 233 |
| MS.gene069446.t1 | MTR_6g078250 | 56.633 | 196 | 76 | 2 | 16 | 211 | 15 | 201 | 1.54e-72 | 219 |
| MS.gene069446.t1 | MTR_6g078260 | 48.624 | 218 | 89 | 6 | 1 | 214 | 1 | 199 | 7.21e-59 | 184 |
| MS.gene069446.t1 | MTR_7g037410 | 48.128 | 187 | 85 | 4 | 29 | 214 | 27 | 202 | 3.62e-55 | 175 |
| MS.gene069446.t1 | MTR_6g078070 | 40.090 | 222 | 106 | 9 | 1 | 214 | 1 | 203 | 2.08e-39 | 134 |
| MS.gene069446.t1 | MTR_6g078100 | 39.556 | 225 | 105 | 10 | 1 | 214 | 1 | 205 | 6.66e-38 | 130 |
| MS.gene069446.t1 | MTR_6g065460 | 31.019 | 216 | 135 | 5 | 1 | 214 | 1 | 204 | 3.66e-20 | 84.7 |
| MS.gene069446.t1 | MTR_3g106620 | 28.899 | 218 | 123 | 7 | 5 | 214 | 6 | 199 | 1.22e-18 | 80.9 |
| MS.gene069446.t1 | MTR_3g106585 | 30.275 | 218 | 118 | 8 | 5 | 214 | 6 | 197 | 2.77e-18 | 80.1 |
| MS.gene069446.t1 | MTR_8g461050 | 29.952 | 207 | 123 | 8 | 14 | 213 | 10 | 201 | 2.80e-15 | 71.6 |
| MS.gene069446.t1 | MTR_2g073010 | 32.995 | 197 | 103 | 9 | 24 | 214 | 25 | 198 | 3.42e-15 | 71.2 |
| MS.gene069446.t1 | MTR_2g072980 | 31.163 | 215 | 117 | 10 | 4 | 214 | 12 | 199 | 1.64e-13 | 67.0 |
| MS.gene069446.t1 | MTR_8g059790 | 28.947 | 190 | 113 | 8 | 31 | 213 | 29 | 203 | 1.41e-12 | 64.3 |
| MS.gene069446.t1 | MTR_6g017225 | 29.651 | 172 | 105 | 6 | 4 | 174 | 6 | 162 | 2.45e-12 | 65.5 |
| MS.gene069446.t1 | MTR_6g009563 | 29.767 | 215 | 125 | 9 | 6 | 214 | 9 | 203 | 3.01e-12 | 63.5 |
| MS.gene069446.t1 | MTR_6g009650 | 30.693 | 202 | 115 | 8 | 9 | 205 | 11 | 192 | 3.52e-12 | 63.5 |
| MS.gene069446.t1 | MTR_6g059530 | 28.959 | 221 | 124 | 10 | 1 | 214 | 1 | 195 | 8.06e-12 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069446.t1 | AT1G17860 | 43.056 | 216 | 97 | 8 | 3 | 214 | 2 | 195 | 2.03e-47 | 155 |
| MS.gene069446.t1 | AT1G73260 | 35.681 | 213 | 112 | 7 | 8 | 214 | 12 | 205 | 1.86e-29 | 109 |
| MS.gene069446.t1 | AT1G73325 | 34.091 | 220 | 122 | 9 | 1 | 214 | 1 | 203 | 6.84e-26 | 100 |
| MS.gene069446.t1 | AT1G73330 | 27.273 | 220 | 126 | 9 | 1 | 214 | 1 | 192 | 3.29e-12 | 63.5 |
Find 48 sgRNAs with CRISPR-Local
Find 56 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATCTTGAACCAATTATTAA+TGG | 0.190104 | 6.4:-52753346 | None:intergenic |
| CTTGTTGAAATTTAACTTTA+AGG | 0.254449 | 6.4:-52753500 | None:intergenic |
| TTAAGTTCACAACCACTTCT+TGG | 0.258897 | 6.4:+52752925 | MS.gene069446:CDS |
| GATGGGAAACCATTAATAAT+TGG | 0.274442 | 6.4:+52753337 | MS.gene069446:CDS |
| GGAGTGTTTGTTGATGAAAA+TGG | 0.277827 | 6.4:+52753447 | MS.gene069446:CDS |
| CACCTGTGAATGGGTATAAC+CGG | 0.336556 | 6.4:-52753027 | None:intergenic |
| AGACAATGGTTTATTACTAT+TGG | 0.339490 | 6.4:+52753294 | MS.gene069446:CDS |
| TTGTTGAAATTTAACTTTAA+GGG | 0.352360 | 6.4:-52753499 | None:intergenic |
| ATTCACAGGTGTGGACCTTA+TGG | 0.370571 | 6.4:+52753039 | MS.gene069446:CDS |
| TGGTTCAAGATTGAGAAGTA+TGG | 0.396705 | 6.4:+52753357 | MS.gene069446:CDS |
| TGGTGGTGTTGTTGGAAATC+CGG | 0.404788 | 6.4:+52753314 | MS.gene069446:CDS |
| GATCAAGTGGTCGACACATT+AGG | 0.407221 | 6.4:+52752967 | MS.gene069446:CDS |
| GAGTGTTTGTTGATGAAAAT+GGG | 0.410318 | 6.4:+52753448 | MS.gene069446:CDS |
| TGAAAATGGGAATAAGCGTT+TGG | 0.412010 | 6.4:+52753461 | MS.gene069446:CDS |
| ATTACTATTGGTGGTGTTGT+TGG | 0.423355 | 6.4:+52753306 | MS.gene069446:CDS |
| CTACTTCTACATTTACCATA+AGG | 0.458135 | 6.4:-52753054 | None:intergenic |
| TTGAAAGACTGCACCACACT+AGG | 0.459638 | 6.4:-52753405 | None:intergenic |
| AGTCTTGCCCTAGCAAGTAT+TGG | 0.463122 | 6.4:+52753084 | MS.gene069446:CDS |
| GTCTTTCAAGCATATGTGTA+AGG | 0.466167 | 6.4:+52753419 | MS.gene069446:CDS |
| AACTTGCCCTCTTGATGTTG+TGG | 0.473079 | 6.4:+52753110 | MS.gene069446:CDS |
| CAATGGTTTATTACTATTGG+TGG | 0.475905 | 6.4:+52753297 | MS.gene069446:CDS |
| TTATTAATGGTTTCCCATCC+CGG | 0.501459 | 6.4:-52753333 | None:intergenic |
| AAGCATATGTGTAAGGATGT+TGG | 0.504444 | 6.4:+52753426 | MS.gene069446:CDS |
| ATAAGGTCCACACCTGTGAA+TGG | 0.514083 | 6.4:-52753037 | None:intergenic |
| TAAGGTCCACACCTGTGAAT+GGG | 0.519817 | 6.4:-52753036 | None:intergenic |
| TTAACGGGTGTAAAGGTTAG+TGG | 0.525966 | 6.4:-52753156 | None:intergenic |
| AAGTGGTTGTGAACTTAAGA+TGG | 0.528274 | 6.4:-52752920 | None:intergenic |
| TGTTGAAATTTAACTTTAAG+GGG | 0.534245 | 6.4:-52753498 | None:intergenic |
| TGCTAATTACTATATTATCC+CGG | 0.540548 | 6.4:+52753008 | MS.gene069446:CDS |
| GGTGGTGTTGTTGGAAATCC+GGG | 0.542963 | 6.4:+52753315 | MS.gene069446:CDS |
| GCTTCAGCTGCTCCAAGAAG+TGG | 0.551993 | 6.4:-52752937 | None:intergenic |
| TCCCGGTTATACCCATTCAC+AGG | 0.554778 | 6.4:+52753025 | MS.gene069446:CDS |
| GTGTTGTTGGAAATCCGGGA+TGG | 0.564391 | 6.4:+52753319 | MS.gene069446:CDS |
| TGTTGTTGGAAATCCGGGAT+GGG | 0.569448 | 6.4:+52753320 | MS.gene069446:CDS |
| TACTTGTCTACACCATTCCA+TGG | 0.570760 | 6.4:+52753239 | MS.gene069446:CDS |
| TGAAAGACTGCACCACACTA+GGG | 0.577137 | 6.4:-52753404 | None:intergenic |
| TATGGTAAATGTAGAAGTAG+TGG | 0.581114 | 6.4:+52753057 | MS.gene069446:CDS |
| CAAGCTTCCACACCATGGAA+TGG | 0.584005 | 6.4:-52753251 | None:intergenic |
| GTCTACACCATTCCATGGTG+TGG | 0.596900 | 6.4:+52753244 | MS.gene069446:CDS |
| ACCTGTGAATGGGTATAACC+GGG | 0.598899 | 6.4:-52753026 | None:intergenic |
| TTAATGTATCTAAGAGACAA+TGG | 0.603832 | 6.4:+52753280 | MS.gene069446:CDS |
| GTATGGTGATGCTTATAAGT+TGG | 0.604702 | 6.4:+52753374 | MS.gene069446:CDS |
| TGAAGCTTCAAATGATCAAG+TGG | 0.606293 | 6.4:+52752954 | MS.gene069446:CDS |
| TCAACAACCACAACATCAAG+AGG | 0.610607 | 6.4:-52753117 | None:intergenic |
| TATAGTAATTAGCATCAGCT+CGG | 0.621190 | 6.4:-52752999 | None:intergenic |
| GTTATACCCATTCACAGGTG+TGG | 0.621916 | 6.4:+52753030 | MS.gene069446:CDS |
| ACGATCAAGCTTCCACACCA+TGG | 0.629046 | 6.4:-52753256 | None:intergenic |
| CAACAACCACAACATCAAGA+GGG | 0.678487 | 6.4:-52753116 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGTTGAAATTTAACTTTAA+GGG | - | chr6.4:52753502-52753521 | None:intergenic | 15.0% |
| !! | AATCTTGAACCAATTATTAA+TGG | - | chr6.4:52753349-52753368 | None:intergenic | 20.0% |
| !!! | CTTGTTGAAATTTAACTTTA+AGG | - | chr6.4:52753503-52753522 | None:intergenic | 20.0% |
| !!! | TGTTGAAATTTAACTTTAAG+GGG | - | chr6.4:52753501-52753520 | None:intergenic | 20.0% |
| ! | AGACAATGGTTTATTACTAT+TGG | + | chr6.4:52753294-52753313 | MS.gene069446:CDS | 25.0% |
| ! | TGCTAATTACTATATTATCC+CGG | + | chr6.4:52753008-52753027 | MS.gene069446:CDS | 25.0% |
| ! | TTAATGTATCTAAGAGACAA+TGG | + | chr6.4:52753280-52753299 | MS.gene069446:CDS | 25.0% |
| CAATGGTTTATTACTATTGG+TGG | + | chr6.4:52753297-52753316 | MS.gene069446:CDS | 30.0% | |
| CTACTTCTACATTTACCATA+AGG | - | chr6.4:52753057-52753076 | None:intergenic | 30.0% | |
| GATGGGAAACCATTAATAAT+TGG | + | chr6.4:52753337-52753356 | MS.gene069446:CDS | 30.0% | |
| TATAGTAATTAGCATCAGCT+CGG | - | chr6.4:52753002-52753021 | None:intergenic | 30.0% | |
| TATGGTAAATGTAGAAGTAG+TGG | + | chr6.4:52753057-52753076 | MS.gene069446:CDS | 30.0% | |
| ! | AAGTTTTTCCAATACTTGCT+AGG | - | chr6.4:52753095-52753114 | None:intergenic | 30.0% |
| ! | GAGTGTTTGTTGATGAAAAT+GGG | + | chr6.4:52753448-52753467 | MS.gene069446:CDS | 30.0% |
| !! | AGTTTTTCCAATACTTGCTA+GGG | - | chr6.4:52753094-52753113 | None:intergenic | 30.0% |
| !!! | ACACCTTTTTTTGGATTAAC+GGG | - | chr6.4:52753174-52753193 | None:intergenic | 30.0% |
| !!! | GACACCTTTTTTTGGATTAA+CGG | - | chr6.4:52753175-52753194 | None:intergenic | 30.0% |
| AAGCATATGTGTAAGGATGT+TGG | + | chr6.4:52753426-52753445 | MS.gene069446:CDS | 35.0% | |
| AAGTGGTTGTGAACTTAAGA+TGG | - | chr6.4:52752923-52752942 | None:intergenic | 35.0% | |
| ACACCCGTTAATCCAAAAAA+AGG | + | chr6.4:52753168-52753187 | MS.gene069446:CDS | 35.0% | |
| GTCTTTCAAGCATATGTGTA+AGG | + | chr6.4:52753419-52753438 | MS.gene069446:CDS | 35.0% | |
| TGAAAATGGGAATAAGCGTT+TGG | + | chr6.4:52753461-52753480 | MS.gene069446:CDS | 35.0% | |
| TGAAGCTTCAAATGATCAAG+TGG | + | chr6.4:52752954-52752973 | MS.gene069446:CDS | 35.0% | |
| TGGTTCAAGATTGAGAAGTA+TGG | + | chr6.4:52753357-52753376 | MS.gene069446:CDS | 35.0% | |
| TTAAGTTCACAACCACTTCT+TGG | + | chr6.4:52752925-52752944 | MS.gene069446:CDS | 35.0% | |
| TTATTAATGGTTTCCCATCC+CGG | - | chr6.4:52753336-52753355 | None:intergenic | 35.0% | |
| ! | GGAGTGTTTGTTGATGAAAA+TGG | + | chr6.4:52753447-52753466 | MS.gene069446:CDS | 35.0% |
| ! | GTATGGTGATGCTTATAAGT+TGG | + | chr6.4:52753374-52753393 | MS.gene069446:CDS | 35.0% |
| !! | ATTACTATTGGTGGTGTTGT+TGG | + | chr6.4:52753306-52753325 | MS.gene069446:CDS | 35.0% |
| !! | TTTTGGATTAACGGGTGTAA+AGG | - | chr6.4:52753166-52753185 | None:intergenic | 35.0% |
| !!! | ACACGAATGACACCTTTTTT+TGG | - | chr6.4:52753183-52753202 | None:intergenic | 35.0% |
| CAACAACCACAACATCAAGA+GGG | - | chr6.4:52753119-52753138 | None:intergenic | 40.0% | |
| TACTTGTCTACACCATTCCA+TGG | + | chr6.4:52753239-52753258 | MS.gene069446:CDS | 40.0% | |
| TCAACAACCACAACATCAAG+AGG | - | chr6.4:52753120-52753139 | None:intergenic | 40.0% | |
| ! | TTAACGGGTGTAAAGGTTAG+TGG | - | chr6.4:52753159-52753178 | None:intergenic | 40.0% |
| AACTTGCCCTCTTGATGTTG+TGG | + | chr6.4:52753110-52753129 | MS.gene069446:CDS | 45.0% | |
| ACCTGTGAATGGGTATAACC+GGG | - | chr6.4:52753029-52753048 | None:intergenic | 45.0% | |
| AGTCTTGCCCTAGCAAGTAT+TGG | + | chr6.4:52753084-52753103 | MS.gene069446:CDS | 45.0% | |
| ATAAGGTCCACACCTGTGAA+TGG | - | chr6.4:52753040-52753059 | None:intergenic | 45.0% | |
| ATTCACAGGTGTGGACCTTA+TGG | + | chr6.4:52753039-52753058 | MS.gene069446:CDS | 45.0% | |
| CACCTGTGAATGGGTATAAC+CGG | - | chr6.4:52753030-52753049 | None:intergenic | 45.0% | |
| GATCAAGTGGTCGACACATT+AGG | + | chr6.4:52752967-52752986 | MS.gene069446:CDS | 45.0% | |
| GTTATACCCATTCACAGGTG+TGG | + | chr6.4:52753030-52753049 | MS.gene069446:CDS | 45.0% | |
| TAAGGTCCACACCTGTGAAT+GGG | - | chr6.4:52753039-52753058 | None:intergenic | 45.0% | |
| TGAAAGACTGCACCACACTA+GGG | - | chr6.4:52753407-52753426 | None:intergenic | 45.0% | |
| TGTTGTTGGAAATCCGGGAT+GGG | + | chr6.4:52753320-52753339 | MS.gene069446:CDS | 45.0% | |
| TTGAAAGACTGCACCACACT+AGG | - | chr6.4:52753408-52753427 | None:intergenic | 45.0% | |
| !! | TGGTGGTGTTGTTGGAAATC+CGG | + | chr6.4:52753314-52753333 | MS.gene069446:CDS | 45.0% |
| ACGATCAAGCTTCCACACCA+TGG | - | chr6.4:52753259-52753278 | None:intergenic | 50.0% | |
| CAAGCTTCCACACCATGGAA+TGG | - | chr6.4:52753254-52753273 | None:intergenic | 50.0% | |
| GTCTACACCATTCCATGGTG+TGG | + | chr6.4:52753244-52753263 | MS.gene069446:CDS | 50.0% | |
| TCCCGGTTATACCCATTCAC+AGG | + | chr6.4:52753025-52753044 | MS.gene069446:CDS | 50.0% | |
| ! | GTGTTGTTGGAAATCCGGGA+TGG | + | chr6.4:52753319-52753338 | MS.gene069446:CDS | 50.0% |
| !! | GGTGGTGTTGTTGGAAATCC+GGG | + | chr6.4:52753315-52753334 | MS.gene069446:CDS | 50.0% |
| !! | GTTGGTGTTTTGCCCTAGTG+TGG | + | chr6.4:52753392-52753411 | MS.gene069446:CDS | 50.0% |
| GCTTCAGCTGCTCCAAGAAG+TGG | - | chr6.4:52752940-52752959 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 52752883 | 52753527 | 52752883 | ID=MS.gene069446 |
| chr6.4 | mRNA | 52752883 | 52753527 | 52752883 | ID=MS.gene069446.t1;Parent=MS.gene069446 |
| chr6.4 | exon | 52752883 | 52753527 | 52752883 | ID=MS.gene069446.t1.exon1;Parent=MS.gene069446.t1 |
| chr6.4 | CDS | 52752883 | 52753527 | 52752883 | ID=cds.MS.gene069446.t1;Parent=MS.gene069446.t1 |
| Gene Sequence |
| Protein sequence |
