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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0559640 | XP_003608338.3 | 98.367 | 796 | 13 | 0 | 1 | 796 | 1 | 796 | 0.0 | 1574 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0559640 | sp|Q9M0Z3|KEA3_ARATH | 72.106 | 717 | 170 | 7 | 13 | 721 | 17 | 711 | 0.0 | 971 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0559640 | A0A396ICV0 | 98.367 | 796 | 13 | 0 | 1 | 796 | 1 | 796 | 0.0 | 1574 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0559640 | 0.880797 | 4.080815e-70 | -8.615850e-47 |
| Msa0000800 | Msa0559640 | -0.821014 | 5.057270e-53 | -8.615850e-47 |
| Msa0001040 | Msa0559640 | 0.810005 | 1.429368e-50 | -8.615850e-47 |
| Msa0001510 | Msa0559640 | 0.825956 | 3.533255e-54 | -8.615850e-47 |
| Msa0002110 | Msa0559640 | 0.890770 | 7.295495e-74 | -8.615850e-47 |
| Msa0002690 | Msa0559640 | 0.908315 | 1.954666e-81 | -8.615850e-47 |
| Msa0002700 | Msa0559640 | 0.911582 | 5.163720e-83 | -8.615850e-47 |
| Msa0003340 | Msa0559640 | 0.854892 | 9.094853e-62 | -8.615850e-47 |
| Msa0003450 | Msa0559640 | 0.820554 | 6.451364e-53 | -8.615850e-47 |
| Msa0003840 | Msa0559640 | -0.819560 | 1.089374e-52 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0559640 | MtrunA17_Chr4g0049391 | 98.367 | 796 | 13 | 0 | 1 | 796 | 1 | 796 | 0.0 | 1574 |
| Msa0559640 | MtrunA17_Chr8g0349591 | 37.599 | 633 | 345 | 13 | 110 | 727 | 573 | 1170 | 4.18e-99 | 333 |
| Msa0559640 | MtrunA17_Chr7g0247081 | 38.544 | 563 | 303 | 10 | 110 | 663 | 588 | 1116 | 6.20e-89 | 305 |
| Msa0559640 | MtrunA17_Chr1g0151641 | 29.024 | 410 | 241 | 8 | 134 | 521 | 232 | 613 | 7.83e-31 | 129 |
| Msa0559640 | MtrunA17_Chr6g0475301 | 30.287 | 383 | 229 | 9 | 126 | 498 | 177 | 531 | 1.96e-26 | 114 |
| Msa0559640 | MtrunA17_Chr8g0389231 | 28.191 | 376 | 233 | 10 | 133 | 498 | 189 | 537 | 4.00e-24 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0559640 | AT4G04850.2 | 72.106 | 717 | 170 | 7 | 13 | 721 | 17 | 711 | 0.0 | 971 |
| Msa0559640 | AT4G04850.1 | 73.248 | 628 | 140 | 6 | 13 | 632 | 17 | 624 | 0.0 | 854 |
| Msa0559640 | AT4G00630.1 | 39.350 | 554 | 293 | 9 | 119 | 663 | 579 | 1098 | 1.11e-93 | 318 |
| Msa0559640 | AT1G01790.1 | 38.721 | 563 | 302 | 10 | 110 | 663 | 590 | 1118 | 1.16e-93 | 318 |
| Msa0559640 | AT1G01790.2 | 38.721 | 563 | 302 | 10 | 110 | 663 | 590 | 1118 | 1.16e-93 | 318 |
| Msa0559640 | AT4G00630.2 | 38.938 | 565 | 291 | 10 | 119 | 663 | 579 | 1109 | 3.17e-92 | 314 |
| Msa0559640 | AT5G51710.1 | 31.250 | 384 | 224 | 11 | 126 | 498 | 172 | 526 | 3.29e-32 | 133 |
| Msa0559640 | AT5G51710.2 | 31.250 | 384 | 224 | 11 | 126 | 498 | 172 | 526 | 3.80e-32 | 132 |
| Msa0559640 | AT5G11800.1 | 30.952 | 378 | 217 | 9 | 134 | 498 | 203 | 549 | 5.46e-28 | 120 |
| Msa0559640 | AT2G19600.1 | 30.890 | 382 | 212 | 11 | 134 | 498 | 195 | 541 | 1.60e-27 | 119 |
Find 234 sgRNAs with CRISPR-Local
Find 690 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAAAGGCTTGTAGAA+AGG | 0.513467 | 4_1:+58830314 | None:intergenic |
| AAAAGTAGCCACACAAGAAA+TGG | 0.383694 | 4_1:+58830191 | None:intergenic |
| AAACTTTCTTGAGCAAGCAT+GGG | 0.530615 | 4_1:+58824441 | None:intergenic |
| AAAGCTACATATCATGTTGA+AGG | 0.446014 | 4_1:+58819859 | None:intergenic |
| AAAGGATTTGGATATGGTGT+TGG | 0.504707 | 4_1:+58830332 | None:intergenic |
| AAAGGCTTGTAGAAAGGATT+TGG | 0.304678 | 4_1:+58830320 | None:intergenic |
| AAAGTAACAAAACCGAAGTT+GGG | 0.413121 | 4_1:+58830105 | None:intergenic |
| AAATAGCTTAGAAGTATCAG+TGG | 0.613392 | 4_1:+58830218 | None:intergenic |
| AAATATTATGGAACCATTCC+AGG | 0.363335 | 4_1:-58821013 | Msa0559640:intron |
| AAATCCAAACTCTCCTCCTT+GGG | 0.479046 | 4_1:+58822957 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAAAAATTGAATTGCTGAGA+TGG | - | chr4_1:58819891-58819910 | Msa0559640:three_prime_UTR | 30.0% | |
| TTGTAGAAAGGATTTGGATA+TGG | + | chr4_1:58819969-58819988 | None:intergenic | 30.0% | |
| AAAACAAAAGGCTTGTAGAA+AGG | + | chr4_1:58819981-58820000 | None:intergenic | 30.0% | |
| AAAGTAACAAAACCGAAGTT+GGG | + | chr4_1:58820190-58820209 | None:intergenic | 30.0% | |
| TAGTAAAGATTCCAACATAG+TGG | + | chr4_1:58820233-58820252 | None:intergenic | 30.0% | |
| ATTGATTGATGTTACCTTGA+GGG | + | chr4_1:58820269-58820288 | None:intergenic | 30.0% | |
| TTATCCGTTTCTTGATTACA+TGG | - | chr4_1:58820564-58820583 | Msa0559640:intron | 30.0% | |
| GATAATATACTAAAGAGTGG+AGG | + | chr4_1:58820648-58820667 | None:intergenic | 30.0% | |
| ATGTAAAGAAGGAATGAACA+AGG | - | chr4_1:58820673-58820692 | Msa0559640:intron | 30.0% | |
| CAAACACAATTGAGATACAT+AGG | + | chr4_1:58820774-58820793 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 58819842 | 58830472 | 58819842 | ID=Msa0559640;Name=Msa0559640 |
| chr4_1 | mRNA | 58819842 | 58830472 | 58819842 | ID=Msa0559640-mRNA-1;Parent=Msa0559640;Name=Msa0559640-mRNA-1;_AED=0.11;_eAED=0.11;_QI=393|1|1|1|1|1|19|330|796 |
| chr4_1 | exon | 58819842 | 58820417 | 58819842 | ID=Msa0559640-mRNA-1:exon:18088;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58821014 | 58821175 | 58821014 | ID=Msa0559640-mRNA-1:exon:18087;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58821279 | 58821368 | 58821279 | ID=Msa0559640-mRNA-1:exon:18086;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58821752 | 58821913 | 58821752 | ID=Msa0559640-mRNA-1:exon:18085;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58822099 | 58822200 | 58822099 | ID=Msa0559640-mRNA-1:exon:18084;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58822283 | 58822360 | 58822283 | ID=Msa0559640-mRNA-1:exon:18083;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58822705 | 58822840 | 58822705 | ID=Msa0559640-mRNA-1:exon:18082;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58822934 | 58823115 | 58822934 | ID=Msa0559640-mRNA-1:exon:18081;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58823924 | 58824058 | 58823924 | ID=Msa0559640-mRNA-1:exon:18080;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58824163 | 58824264 | 58824163 | ID=Msa0559640-mRNA-1:exon:18079;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58824374 | 58824487 | 58824374 | ID=Msa0559640-mRNA-1:exon:18078;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58825771 | 58825821 | 58825771 | ID=Msa0559640-mRNA-1:exon:18077;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58826035 | 58826103 | 58826035 | ID=Msa0559640-mRNA-1:exon:18076;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58826425 | 58826502 | 58826425 | ID=Msa0559640-mRNA-1:exon:18075;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58827282 | 58827383 | 58827282 | ID=Msa0559640-mRNA-1:exon:18074;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58827612 | 58827692 | 58827612 | ID=Msa0559640-mRNA-1:exon:18073;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58828486 | 58828587 | 58828486 | ID=Msa0559640-mRNA-1:exon:18072;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58828784 | 58829143 | 58828784 | ID=Msa0559640-mRNA-1:exon:18071;Parent=Msa0559640-mRNA-1 |
| chr4_1 | exon | 58830041 | 58830472 | 58830041 | ID=Msa0559640-mRNA-1:exon:18070;Parent=Msa0559640-mRNA-1 |
| chr4_1 | five_prime_UTR | 58830080 | 58830472 | 58830080 | ID=Msa0559640-mRNA-1:five_prime_utr;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58830041 | 58830079 | 58830041 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58828784 | 58829143 | 58828784 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58828486 | 58828587 | 58828486 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58827612 | 58827692 | 58827612 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58827282 | 58827383 | 58827282 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58826425 | 58826502 | 58826425 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58826035 | 58826103 | 58826035 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58825771 | 58825821 | 58825771 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58824374 | 58824487 | 58824374 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58824163 | 58824264 | 58824163 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58823924 | 58824058 | 58823924 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58822934 | 58823115 | 58822934 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58822705 | 58822840 | 58822705 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58822283 | 58822360 | 58822283 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58822099 | 58822200 | 58822099 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58821752 | 58821913 | 58821752 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58821279 | 58821368 | 58821279 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58821014 | 58821175 | 58821014 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | CDS | 58820172 | 58820417 | 58820172 | ID=Msa0559640-mRNA-1:cds;Parent=Msa0559640-mRNA-1 |
| chr4_1 | three_prime_UTR | 58819842 | 58820171 | 58819842 | ID=Msa0559640-mRNA-1:three_prime_utr;Parent=Msa0559640-mRNA-1 |
| Gene Sequence |
>Msa0559640 ATGTTGGAATCTTTACTAGCTTCTTCCCAAACCCTCAAGGGATATGACCTGACGAAACAAAAGAGTCCCGGTTATTCTCGTGCTGTTTCGCGGGTTCATACAAGTTCTATGTTCACGCATTATTCAGTTGACAAGCATGTTCCATTTCAATGTCAAAGTACTGCTGCATCAGAAAAATTCACAAGAAGGCGGCCTCTGGATGCTCCTTCATTTTCTGGTTGGAATTTATCCTATTTCTCCAAGCGTAGGCCACTACGGTGGGATCGGTTACAAACAAATGTTTCATATGACGTTGCTAGTGCGGTTGAAGTCATCAATGATTTAGGATTGGATACTCTTACTTTCTTGGCAGTCACTGTCTTTATTGTCCCCTCATTCAAATTAATTAAAGCCAGTCCTATACTTGGTTTCTTCTGTGCTGGAGTGGTGCTAAATCAGTTTGGTTTAATTAGGAACCTTGAAGATGTTAAAGTTTTGTCTGAATGGGGGATCCTTTTCTTGCTGTTTGAGATGGGTTTAGAACTTTCCCTAGCACGTCTGAAGGCTCTTGCAAAATATGCCTTTGGAATGGGACTGACTCAGGTTCTACTATCTACTTTAGCATTCACTGCTTTTGAGCTTCCACCAAATGGAGCTGTCGGAACAAAGATATTGCAATTCCTTTTCCACTCAAGGTCTGATCTGGTGAACATCAGGAGTGTCGATGAAGCTGTAGTGATTGGGGCTGCTCTCTCTCTGTCATCCTCTGCATTTGTTCTACAGCTTCTTGCAGAGAAAGGCGAGCTTCCTACAAGGCTTGGTTCAGCAACCCTTGGGATACTTCTCTTGCAGGACATAGCTGTTGTGCCTCTTTTGGTCATACTTCCAGTACTTGAGAGCCAGAATATGACCGAGGGAAGTATTTGGCCCATGCTTGCTCAAGAAAGTTTGAAGGCATTAGGTGGATTGGGCCTGCTTTCTTTTGGAGCAAAGTTTTTTCTCAGAAGAATTTTTGAGGTTGTAGCAGATACAAGAAGTTCAGAGGCTTTTGTCGCTCTTTGCTTGCTGACTATTGCTGGGACTTCACTACTCACACAGAAATTGGGCTTCAGTGATACGCTTGGAGCATTTTTAGCTGGGGCAATCCTAGCAGAGACAAATTTCAGGACCCAGATTGAAGCTGACATAAGACCATTTAGAGGCTTGCTGCTCGGGTTGTTTTTTCTAACTACAGGGACTTCAATTGACATGCAGGTTCTCTTGAGAGAGTGGCCAAATGTACTTGCGCTCTTGGGGGGTTTAATTACTATCAAGACATTGATCATAACTGCAATCGGTCCTCGTGTTGGCCTTACTTTACAAGAAAGTGTAAGAATAGGATTGCTTCTATCCCAAGGAGGAGAGTTTGGATTTGTAGTATTCTCTTTGGCGAATAGTCTTGGGGTGCTTCCACTTGAGCTGAACAAGCTGCTCATAATTGTCGTTGTATTGTCAATGGCGTTAACCCCATTTCTGAATGAAGCTGGAAGGAGGGCTGCTAGCTTTATTGAAGACAAATATGATGTTGATAATAAACAGAAAGATCCTGAGATGGTTAACTTCGAAGTTAATGAACCCGTTGTCATCCTTGGATTTGGACAAATGGGCCAGGTCCTTGCCAATTTGCTGTCCAACCCAATGGCTTCAGGGGGAGATGGTGATGCAATAGGATCGACTTATGTGGCATTCGATATTGACCCCAGGGTTGTAAAGACAGCTAGAAAACTTGGTTTTCCTATTCTATATGGGGATGGATCACGTCCAGCTGTTCTTCAATCTGCCGGAATCTCTTCTCCAAAAGCTATCATGATTATGCTCACCGAGAAGGAGAAGTCAATTGAAGCTGTTCAGAGGTTACGATTGGCTTTTCCTGCAGTTCCAATATATGCCAGAGCTCGAGATCTAAAACATCTTTTAGATCTGAAGAAAGCAGGTGCAACAGATGCTACTTTGGAAAAGGCTGAGACTAGCTTACAACTGGGTTCTAAGATGCTGAAAGGTCTCGGGATGATGTCCGATGATGTATCATTTTTGAGTCAGCTTGTTAGAGATTCTATGGAGCTACAAGCTGAAGAAGCAATCAGCCAATCAGAATATCAGGAATCAAATATTATGGAACCATTCCAGGTGAGAGTTGCTGACGTTATGGACGCACGTGTTCCGGTGACAACTAATACACCAAAATATGAAGTATCAGTACCAAACCAGGAAGATCAAGCTTCATTGAGTAGAATTCAGAAGGAAGCAGACCTTGAAGAACAGGATTATGAACTAAATCAAGCTGTTAAATTAGAAGGAAATGGTGCTCCATGTAGCAAACAAGATATCGGAGAAAGCACGGTGGTTGGATCTGAAGATGATTTAGGACACTAG |
| Protein sequence |
>Msa0559640 MLESLLASSQTLKGYDLTKQKSPGYSRAVSRVHTSSMFTHYSVDKHVPFQCQSTAASEKFTRRRPLDAPSFSGWNLSYFSKRRPLRWDRLQTNVSYDVASAVEVINDLGLDTLTFLAVTVFIVPSFKLIKASPILGFFCAGVVLNQFGLIRNLEDVKVLSEWGILFLLFEMGLELSLARLKALAKYAFGMGLTQVLLSTLAFTAFELPPNGAVGTKILQFLFHSRSDLVNIRSVDEAVVIGAALSLSSSAFVLQLLAEKGELPTRLGSATLGILLLQDIAVVPLLVILPVLESQNMTEGSIWPMLAQESLKALGGLGLLSFGAKFFLRRIFEVVADTRSSEAFVALCLLTIAGTSLLTQKLGFSDTLGAFLAGAILAETNFRTQIEADIRPFRGLLLGLFFLTTGTSIDMQVLLREWPNVLALLGGLITIKTLIITAIGPRVGLTLQESVRIGLLLSQGGEFGFVVFSLANSLGVLPLELNKLLIIVVVLSMALTPFLNEAGRRAASFIEDKYDVDNKQKDPEMVNFEVNEPVVILGFGQMGQVLANLLSNPMASGGDGDAIGSTYVAFDIDPRVVKTARKLGFPILYGDGSRPAVLQSAGISSPKAIMIMLTEKEKSIEAVQRLRLAFPAVPIYARARDLKHLLDLKKAGATDATLEKAETSLQLGSKMLKGLGMMSDDVSFLSQLVRDSMELQAEEAISQSEYQESNIMEPFQVRVADVMDARVPVTTNTPKYEVSVPNQEDQASLSRIQKEADLEEQDYELNQAVKLEGNGAPCSKQDIGESTVVGSEDDLGH* |
