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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1296860 | XP_013446473.1 | 98.521 | 541 | 7 | 1 | 1 | 540 | 1 | 541 | 0.0 | 1097 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1296860 | sp|P29162|ASOL_TOBAC | 52.514 | 537 | 241 | 5 | 14 | 537 | 10 | 545 | 0.0 | 588 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1296860 | A0A072U3T7 | 98.521 | 541 | 7 | 1 | 1 | 540 | 1 | 541 | 0.0 | 1097 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0006840 | Msa1296860 | 0.819877 | 9.219299e-53 | -8.615850e-47 |
| Msa0017750 | Msa1296860 | 0.813317 | 2.721719e-51 | -8.615850e-47 |
| Msa0032130 | Msa1296860 | 0.800188 | 1.620240e-48 | -8.615850e-47 |
| Msa0036810 | Msa1296860 | 0.812325 | 4.486341e-51 | -8.615850e-47 |
| Msa0038530 | Msa1296860 | 0.817456 | 3.266282e-52 | -8.615850e-47 |
| Msa0044170 | Msa1296860 | 0.821079 | 4.884779e-53 | -8.615850e-47 |
| Msa0044780 | Msa1296860 | -0.800528 | 1.381309e-48 | -8.615850e-47 |
| Msa0045620 | Msa1296860 | 0.839214 | 1.811977e-57 | -8.615850e-47 |
| Msa0050530 | Msa1296860 | 0.815166 | 1.062643e-51 | -8.615850e-47 |
| Msa0053000 | Msa1296860 | 0.801818 | 7.523299e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1296860 | MtrunA17_Chr8g0374271 | 98.521 | 541 | 7 | 1 | 1 | 540 | 1 | 541 | 0.0 | 1097 |
| Msa1296860 | MtrunA17_Chr5g0402831 | 82.239 | 518 | 90 | 1 | 22 | 539 | 22 | 537 | 0.0 | 875 |
| Msa1296860 | MtrunA17_Chr8g0374261 | 65.966 | 523 | 175 | 3 | 15 | 535 | 13 | 534 | 0.0 | 730 |
| Msa1296860 | MtrunA17_Chr4g0075071 | 62.453 | 530 | 197 | 1 | 11 | 538 | 11 | 540 | 0.0 | 682 |
| Msa1296860 | MtrunA17_Chr4g0024861 | 60.000 | 520 | 206 | 1 | 22 | 539 | 18 | 537 | 0.0 | 662 |
| Msa1296860 | MtrunA17_Chr4g0038671 | 59.434 | 530 | 210 | 2 | 15 | 539 | 10 | 539 | 0.0 | 659 |
| Msa1296860 | MtrunA17_Chr3g0143671 | 59.259 | 540 | 213 | 2 | 7 | 539 | 1 | 540 | 0.0 | 649 |
| Msa1296860 | MtrunA17_Chr1g0157341 | 59.252 | 535 | 216 | 1 | 7 | 539 | 5 | 539 | 0.0 | 645 |
| Msa1296860 | MtrunA17_Chr2g0322441 | 60.194 | 515 | 203 | 1 | 26 | 538 | 25 | 539 | 0.0 | 639 |
| Msa1296860 | MtrunA17_Chr4g0043251 | 54.880 | 543 | 230 | 5 | 1 | 533 | 1 | 538 | 0.0 | 596 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1296860 | AT5G66920.1 | 74.324 | 518 | 133 | 0 | 23 | 540 | 29 | 546 | 0.0 | 819 |
| Msa1296860 | AT4G37160.1 | 63.873 | 537 | 192 | 2 | 1 | 535 | 1 | 537 | 0.0 | 700 |
| Msa1296860 | AT2G23630.2 | 65.571 | 517 | 177 | 1 | 20 | 535 | 24 | 540 | 0.0 | 692 |
| Msa1296860 | AT2G23630.1 | 65.571 | 517 | 177 | 1 | 20 | 535 | 19 | 535 | 0.0 | 692 |
| Msa1296860 | AT4G22010.1 | 58.856 | 542 | 215 | 3 | 1 | 539 | 1 | 537 | 0.0 | 667 |
| Msa1296860 | AT1G21850.1 | 59.546 | 529 | 211 | 3 | 13 | 539 | 10 | 537 | 0.0 | 655 |
| Msa1296860 | AT1G76160.1 | 58.634 | 527 | 217 | 1 | 13 | 538 | 10 | 536 | 0.0 | 651 |
| Msa1296860 | AT1G21860.1 | 58.254 | 527 | 218 | 2 | 14 | 539 | 12 | 537 | 0.0 | 649 |
| Msa1296860 | AT1G41830.1 | 57.685 | 527 | 222 | 1 | 14 | 539 | 12 | 538 | 0.0 | 639 |
| Msa1296860 | AT4G38420.1 | 55.618 | 534 | 229 | 3 | 14 | 539 | 13 | 546 | 0.0 | 610 |
Find 150 sgRNAs with CRISPR-Local
Find 248 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAAGCTCAATAAAATCA+TGG | 0.502856 | 8_3:-56629276 | None:intergenic |
| AAATCTCTAGCATTTCCTGA+TGG | 0.629511 | 8_3:+56628068 | Msa1296860:CDS |
| AAATTACACCTACAAGTTTC+AGG | 0.351878 | 8_3:+56627357 | Msa1296860:CDS |
| AAATTCTTGGACTACCATAT+TGG | 0.318980 | 8_3:+56629843 | Msa1296860:CDS |
| AACCTTAAACCAATCTCCTA+AGG | 0.547455 | 8_3:+56628420 | Msa1296860:CDS |
| AACTCTCACTCCCCTGCTTC+TGG | 0.317235 | 8_3:+56628514 | Msa1296860:CDS |
| AACTTCATAAAGCAGCTGGA+GGG | 0.614826 | 8_3:+56627422 | Msa1296860:CDS |
| AAGGATTCTTACAGCAACTG+CGG | 0.701532 | 8_3:+56628477 | Msa1296860:CDS |
| AAGTAATCAGCAAGTTTGAG+AGG | 0.596877 | 8_3:-56629160 | None:intergenic |
| AATATGGTAGTCCAAGAATT+TGG | 0.193748 | 8_3:-56629841 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGTGCATAATCACAAAAC+TGG | + | chr8_3:56626470-56626489 | Msa1296860:five_prime_UTR | 30.0% | |
| TTGATAAATGGTCAATTTCC+GGG | + | chr8_3:56627074-56627093 | Msa1296860:CDS | 30.0% | |
| TTAGTTACTAAGTCTAGTTG+AGG | - | chr8_3:56627101-56627120 | None:intergenic | 30.0% | |
| CTTAGTAACTAATGAAAACG+TGG | + | chr8_3:56627109-56627128 | Msa1296860:CDS | 30.0% | |
| TCTCAATCTTGTCAACAAAT+TGG | + | chr8_3:56627133-56627152 | Msa1296860:CDS | 30.0% | |
| AAATTACACCTACAAGTTTC+AGG | + | chr8_3:56627357-56627376 | Msa1296860:CDS | 30.0% | |
| GATGTTAGAACATTATGACA+TGG | - | chr8_3:56627604-56627623 | None:intergenic | 30.0% | |
| AAAATACTGAGCTTGAAATC+TGG | + | chr8_3:56627760-56627779 | Msa1296860:intron | 30.0% | |
| TAAGAAAATCAGCACATCAA+CGG | - | chr8_3:56627807-56627826 | None:intergenic | 30.0% | |
| AAAATAAAGTGGACCTCAAT+AGG | + | chr8_3:56627955-56627974 | Msa1296860:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 56626299 | 56630203 | 56626299 | ID=Msa1296860;Name=Msa1296860 |
| chr8_3 | mRNA | 56626299 | 56630203 | 56626299 | ID=Msa1296860-mRNA-1;Parent=Msa1296860;Name=Msa1296860-mRNA-1;_AED=0.07;_eAED=0.07;_QI=198|1|1|1|0.87|0.77|9|165|540 |
| chr8_3 | exon | 56626299 | 56626491 | 56626299 | ID=Msa1296860-mRNA-1:exon:16237;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56626595 | 56626749 | 56626595 | ID=Msa1296860-mRNA-1:exon:16238;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56627068 | 56627177 | 56627068 | ID=Msa1296860-mRNA-1:exon:16239;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56627282 | 56627552 | 56627282 | ID=Msa1296860-mRNA-1:exon:16240;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56628041 | 56628137 | 56628041 | ID=Msa1296860-mRNA-1:exon:16241;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56628254 | 56628599 | 56628254 | ID=Msa1296860-mRNA-1:exon:16242;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56628997 | 56629362 | 56628997 | ID=Msa1296860-mRNA-1:exon:16243;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56629489 | 56629567 | 56629489 | ID=Msa1296860-mRNA-1:exon:16244;Parent=Msa1296860-mRNA-1 |
| chr8_3 | exon | 56629835 | 56630203 | 56629835 | ID=Msa1296860-mRNA-1:exon:16245;Parent=Msa1296860-mRNA-1 |
| chr8_3 | five_prime_UTR | 56626299 | 56626491 | 56626299 | ID=Msa1296860-mRNA-1:five_prime_utr;Parent=Msa1296860-mRNA-1 |
| chr8_3 | five_prime_UTR | 56626595 | 56626599 | 56626595 | ID=Msa1296860-mRNA-1:five_prime_utr;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56626600 | 56626749 | 56626600 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56627068 | 56627177 | 56627068 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56627282 | 56627552 | 56627282 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56628041 | 56628137 | 56628041 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56628254 | 56628599 | 56628254 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56628997 | 56629362 | 56628997 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56629489 | 56629567 | 56629489 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | CDS | 56629835 | 56630038 | 56629835 | ID=Msa1296860-mRNA-1:cds;Parent=Msa1296860-mRNA-1 |
| chr8_3 | three_prime_UTR | 56630039 | 56630203 | 56630039 | ID=Msa1296860-mRNA-1:three_prime_utr;Parent=Msa1296860-mRNA-1 |
| Gene Sequence |
>Msa1296860 ATGAGAAGCACATGTTTTCTCTATCTGCTGCTACATGCTGTTGTTTTGGCTTTGCTTAGTGTTTCTCTAGTGCAAGCAGAAGATGGATACAAATATTTTACATGGACTGTAACTTATGGAACTCTTTCTCCACTTGGTACTCCTCAGCAGGTGATTTTGATAAATGGTCAATTTCCGGGGCCTCAACTAGACTTAGTAACTAATGAAAACGTGGTTCTCAATCTTGTCAACAAATTGGACCAACCATTTCTACTCACTTGGAATGGCATTAAACAAAGGAAAAATTCATGGCAAGATGGGGTATTAGGAACCAACTGTCCAATACCTCCAAACTCAAATTACACCTACAAGTTTCAGGCCAAGGATCAGATTGGAACATACACATACTTTCCATCAACTCAACTTCATAAAGCAGCTGGAGGGTTTGGAGCAATTAATGTCTATCATAGATCTGTCATCGCAGTTCCTTATCCATACCCTGATGGAGATTTCACTTTGCTCATTGGTGATTGGTACAAGACCAACCATAAGGCATTAAGAGAGTCATTGGATTCTGGAAAATCTCTAGCATTTCCTGATGGTCTGCTCATCAATGGTCAAGCTCATTCAACCATAAATGGTGATCAAGGAAAGACTTATATGTTCAGAATCTCAAATGTGGGAATGTCGACATCGATTAACTTCAGAATTCAAGGACACACCCTAAAACTAGTCGAGGTGGAAGGGTCACATGTTATCCAAAACATATATGACTCCCTTGATGTCCATGTTGGGCAATCAGCTGCTGTTTTGGTAACCTTAAACCAATCTCCTAAGGACTATTACATCGTTGCTTCAACAAGATTTTCGAGAAGGATTCTTACAGCAACTGCGGTGTTGCACTATACAAACTCTCACTCCCCTGCTTCTGGTCCTTTGCCTAGTCCTCCTGCTTACCAATATCATTGGTCTTTGATACAAGCTAGAAGCTTCAGATGGAATCTAACAGCAAATGCTGCAAGGCCAAACCCACAAGGATCATACCATTATGGAAAAATAACTCCTACAAAGACAATTGTATTAGCCAATTCAGCACCATTAATTAATGGAAAATTACGTTACGCTGTTAACAAGGTTTCCTATGTAAACTCTGAAACCCCTCTCAAACTTGCTGATTACTTCAACATTCCTGGAATATTCAGTGTGGATTCAATCCAAAGCATTCCTTCTAATGGTCCTGCTTATGTAGCTACCTCAGTATTGCCAACTTTTCTCCATGATTTTATTGAGCTTGTTTTCCAGAATGATGAAAACACCATGCAATCTTGGCATCTTGATGGTTATGATTTTTGGGTTGTGGGTTATGGTTTTGGCCAATGGACCCCAGCCAAGAGAAGAATATATAATTTAGTCGATGCCCCGACCAGGCACACTGCACAGGTGTACCCAAATTCTTGGACTACCATATTGGTGTCATTGGACAACCAAGGTATGTGGAATCTGAGGTCTGCAATCTGGGAACGACAATATCTTGGGCAGCAATTATATCTTAGGGTTTGGACCGATCAACGTAGCCTTCGTAATGAATATAACATTCCCACTAATGTATTGCTTTGTGGTAAAGCCAGTGGACATCACGTTTAA |
| Protein sequence |
>Msa1296860 MRSTCFLYLLLHAVVLALLSVSLVQAEDGYKYFTWTVTYGTLSPLGTPQQVILINGQFPGPQLDLVTNENVVLNLVNKLDQPFLLTWNGIKQRKNSWQDGVLGTNCPIPPNSNYTYKFQAKDQIGTYTYFPSTQLHKAAGGFGAINVYHRSVIAVPYPYPDGDFTLLIGDWYKTNHKALRESLDSGKSLAFPDGLLINGQAHSTINGDQGKTYMFRISNVGMSTSINFRIQGHTLKLVEVEGSHVIQNIYDSLDVHVGQSAAVLVTLNQSPKDYYIVASTRFSRRILTATAVLHYTNSHSPASGPLPSPPAYQYHWSLIQARSFRWNLTANAARPNPQGSYHYGKITPTKTIVLANSAPLINGKLRYAVNKVSYVNSETPLKLADYFNIPGIFSVDSIQSIPSNGPAYVATSVLPTFLHDFIELVFQNDENTMQSWHLDGYDFWVVGYGFGQWTPAKRRIYNLVDAPTRHTAQVYPNSWTTILVSLDNQGMWNLRSAIWERQYLGQQLYLRVWTDQRSLRNEYNIPTNVLLCGKASGHHV* |
