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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1317250 | XP_013444682.1 | 96.774 | 682 | 22 | 0 | 1 | 682 | 1 | 682 | 0.0 | 1368 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1317250 | sp|P25848|PHY1_CERPU | 35.333 | 300 | 173 | 11 | 239 | 523 | 1005 | 1298 | 1.70e-37 | 154 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1317250 | A0A072TMR2 | 96.774 | 682 | 22 | 0 | 1 | 682 | 1 | 682 | 0.0 | 1368 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0187970 | Msa1317250 | 0.849346 | 3.430024e-60 | -8.615850e-47 |
| Msa0879640 | Msa1317250 | 0.862019 | 6.813668e-64 | -8.615850e-47 |
| Msa1236870 | Msa1317250 | 0.830787 | 2.412139e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1317250 | MtrunA17_Chr8g0347481 | 96.682 | 633 | 21 | 0 | 1 | 633 | 1 | 633 | 0.0 | 1272 |
| Msa1317250 | MtrunA17_Chr5g0396901 | 48.170 | 683 | 319 | 10 | 1 | 649 | 25 | 706 | 0.0 | 637 |
| Msa1317250 | MtrunA17_Chr4g0059121 | 29.084 | 251 | 151 | 9 | 275 | 524 | 107 | 331 | 4.45e-26 | 110 |
| Msa1317250 | MtrunA17_Chr3g0117731 | 29.885 | 261 | 153 | 9 | 275 | 532 | 106 | 339 | 7.71e-25 | 106 |
| Msa1317250 | MtrunA17_Chr4g0047211 | 30.172 | 232 | 135 | 8 | 275 | 505 | 90 | 295 | 1.20e-24 | 105 |
| Msa1317250 | MtrunA17_Chr4g0047191 | 30.172 | 232 | 135 | 8 | 275 | 505 | 95 | 300 | 1.75e-24 | 105 |
| Msa1317250 | MtrunA17_Chr4g0047201 | 29.310 | 232 | 137 | 8 | 275 | 505 | 251 | 456 | 7.48e-23 | 102 |
| Msa1317250 | MtrunA17_Chr7g0244621 | 34.078 | 179 | 105 | 5 | 328 | 505 | 140 | 306 | 9.25e-23 | 100 |
| Msa1317250 | MtrunA17_Chr5g0406251 | 31.720 | 186 | 101 | 7 | 326 | 510 | 389 | 549 | 1.20e-21 | 99.4 |
| Msa1317250 | MtrunA17_Chr4g0042731 | 29.866 | 298 | 156 | 16 | 237 | 512 | 142 | 408 | 1.37e-21 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1317250 | AT1G64300.2 | 56.684 | 591 | 245 | 7 | 1 | 585 | 1 | 586 | 0.0 | 686 |
| Msa1317250 | AT1G64300.1 | 56.684 | 591 | 245 | 7 | 1 | 585 | 1 | 586 | 0.0 | 686 |
| Msa1317250 | AT5G41730.2 | 49.512 | 717 | 321 | 10 | 1 | 682 | 1 | 711 | 0.0 | 682 |
| Msa1317250 | AT5G41730.1 | 49.512 | 717 | 321 | 10 | 1 | 682 | 1 | 711 | 0.0 | 682 |
| Msa1317250 | AT1G01450.1 | 63.768 | 414 | 133 | 10 | 208 | 609 | 1 | 409 | 1.26e-172 | 501 |
| Msa1317250 | AT3G46930.1 | 28.511 | 235 | 141 | 6 | 279 | 513 | 221 | 428 | 1.06e-24 | 108 |
| Msa1317250 | AT3G46930.2 | 28.511 | 235 | 141 | 6 | 279 | 513 | 256 | 463 | 1.25e-24 | 108 |
| Msa1317250 | AT5G58950.1 | 30.213 | 235 | 131 | 11 | 275 | 505 | 258 | 463 | 5.39e-24 | 107 |
| Msa1317250 | AT1G62400.1 | 28.814 | 236 | 139 | 7 | 272 | 505 | 132 | 340 | 6.72e-21 | 95.9 |
| Msa1317250 | AT1G14000.1 | 31.474 | 251 | 140 | 11 | 269 | 512 | 202 | 427 | 9.98e-21 | 95.9 |
Find 138 sgRNAs with CRISPR-Local
Find 173 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTAAGAACATGCTCTA+GGG | 0.583309 | 8_4:-18403637 | Msa1317250:CDS |
| AAAGGAAATGCAAATCAAAA+TGG | 0.346804 | 8_4:-18404164 | Msa1317250:CDS |
| AAATCTGATGTGTATAGTTT+TGG | 0.298999 | 8_4:-18404056 | Msa1317250:CDS |
| AACATCTACTATCAAGTCCA+AGG | 0.585942 | 8_4:-18402915 | Msa1317250:CDS |
| AAGAAGGAGAAGTTTACATT+AGG | 0.365904 | 8_4:-18405114 | Msa1317250:CDS |
| AAGAATGGTAATCGCTTCCT+CGG | 0.549459 | 8_4:+18404377 | None:intergenic |
| AAGAGGAGATGCAAAGGAAG+AGG | 0.546379 | 8_4:-18404940 | Msa1317250:CDS |
| AATATAATGGATTGTCTTTG+TGG | 0.338241 | 8_4:-18404488 | Msa1317250:CDS |
| AATCATATTAAAGAGGTTCA+TGG | 0.469241 | 8_4:-18404401 | Msa1317250:CDS |
| AATCGAGGGGACATTTGTGG+AGG | 0.676501 | 8_4:+18402964 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAATTTAGACAAATTGGTG+AGG | - | chr8_4:18402716-18402735 | Msa1317250:three_prime_UTR | 30.0% | |
| CTGAAATTTGAAGAGAAGAA+TGG | - | chr8_4:18402867-18402886 | Msa1317250:CDS | 30.0% | |
| ATCTTATGGATCTCTCTTAA+GGG | + | chr8_4:18402915-18402934 | None:intergenic | 30.0% | |
| AATCTTATGGATCTCTCTTA+AGG | + | chr8_4:18402916-18402935 | None:intergenic | 30.0% | |
| AAGAAGGAGAAGTTTACATT+AGG | - | chr8_4:18402940-18402959 | Msa1317250:CDS | 30.0% | |
| TGTATTGTTACACAAGGTAA+TGG | + | chr8_4:18403000-18403019 | None:intergenic | 30.0% | |
| ACAATCTGTATTGTTACACA+AGG | + | chr8_4:18403006-18403025 | None:intergenic | 30.0% | |
| ATCAGTACAAAGAGATTCAA+TGG | - | chr8_4:18403453-18403472 | Msa1317250:intron | 30.0% | |
| TACAAAGAGATTCAATGGTT+AGG | - | chr8_4:18403458-18403477 | Msa1317250:intron | 30.0% | |
| TTTGTCTTAAGACAATGTTC+TGG | - | chr8_4:18403488-18403507 | Msa1317250:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 18402711 | 18405365 | 18402711 | ID=Msa1317250;Name=Msa1317250 |
| chr8_4 | mRNA | 18402711 | 18405365 | 18402711 | ID=Msa1317250-mRNA-1;Parent=Msa1317250;Name=Msa1317250-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|1|0.5|1|1|1|2|153|682 |
| chr8_4 | exon | 18402711 | 18403012 | 18402711 | ID=Msa1317250-mRNA-1:exon:6807;Parent=Msa1317250-mRNA-1 |
| chr8_4 | exon | 18403466 | 18405365 | 18403466 | ID=Msa1317250-mRNA-1:exon:6806;Parent=Msa1317250-mRNA-1 |
| chr8_4 | CDS | 18403466 | 18405365 | 18403466 | ID=Msa1317250-mRNA-1:cds;Parent=Msa1317250-mRNA-1 |
| chr8_4 | CDS | 18402864 | 18403012 | 18402864 | ID=Msa1317250-mRNA-1:cds;Parent=Msa1317250-mRNA-1 |
| chr8_4 | three_prime_UTR | 18402711 | 18402863 | 18402711 | ID=Msa1317250-mRNA-1:three_prime_utr;Parent=Msa1317250-mRNA-1 |
| Gene Sequence |
>Msa1317250 ATGGAACAATTTAGACAAATTGGTGAGGCACTAGGAAGTTTGAAAGCTGTGATGGTGTTCAGAGAGAACATTCAAATCAATCAGAGACAATGTTGTCTTCTTCTAGATGTCTTCAGCTTTGCATATGAATCTATTGCAGATGAGATCATACAGAATCTGAAATTTGAAGAGAAGAATGGAAAGTGGAAAGTTCTAGAACACCCCTTAAGAGAGATCCATAAGATTTTCAAAGAAGGAGAAGTTTACATTAGGCATTGTTTGGAAATAAAGGATTTTTGGGCTAATGCCATTACCTTGTGTAACAATACAGATTGTGTTGAGTTTTACATACACAATTTGCTATGTTGCATGCCTATTGTGATCGAAGCTATTGAATCGGCTTCCGAGACATCAGGTTGGGATCAAGAGGAGATGCAAAGGAAGAGGCTTATCAATTCAAATAAGTATAGAAAAGAATTTCGAGACATGAAGCTTTTCAAGTGGAAATTTGGGAAGCAGTACCTCATTACTCAGGATTTGTGCAACCGCTATGATACAGCTTGGAAGGAAGATAGATGGTTTCTTTTCAACAAAATCCATGAAAAAAAAGTGTCAGATGCAGCAACAAAGTACGAGAAAAAATTAATCGATTTACTTTTGAGGAATTCAGAAGTATCAGAATCACTCGAAGCCAAGCTTCTTCCAAGTTCAATATTGGTCGGTTCTAAGGACTATCAGGTGAGGAGAAGAATAGGGAATGGAAATCAGTACAAAGAGATTCAATGGTTAGGTGAATGTTTTGTCTTAAGACAATGTTCTGGTGACATTGATGCTTTGGAAGGTGAGATTAAAGAACTTTTATCGCTTTCACATCCAAATATAATGGATTGTCTTTGTGGTTTTACTGATGAGGAGAAGAAAGAATGTTTCCTGTTGATGGAACTGATGAGCAAAACACTTAGCAATCATATTAAAGAGGTTCATGGTCCGAGGAAGCGATTACCATTCTTGCTTCATGTCGCGGTTGATATTATGCTTCAGATTGCAAGAGGAATGGAATATCTTCATTCAAAGAAAGTGTATCATGGAGAATTAAACCCTTCAAACATTCTTGTTAAGCCTAGAAGTACCTCTCCAGAAGGTTACTTGCATTGCAAGGTATCAGGTTTCGGTCTACCTTCTGGTAAGGACTTGAACCAGAAAGGAAATGCAAATCAAAATGGAAACCTCTCATTCATTTGGTACTCTCCAGAGGTACTTGAAGAGCAAGAACACTCAGGGGGTGCGTCGATATCCAAGTACACAGAGAAATCTGATGTGTATAGTTTTGGAATGGTTTGCTTTGAGCTTCTCACCGGAAAAGTTCCTTTTGAAGATAGTCATCTTCAAGGGGAGAAAATGAGCAGAAACATAAGAGCAGGAGAGAGGCCACTTTTTCCACTCAATTCACCGAAATATGTTATCAACTTAACAAAGAGATGTTGGCATACCGATCCAAATCAACGTCCGAATTTTTCGTCCATATGTAGAGTTCTTCGTTATGTAAAAAGATTTCTTGTATTGAATCCTGGTTACAGTAGAGAGACAGACCCACCAGTGCCACTTGTAGATTACTGTGATGTAGAGTCGGCACTTTTGAGGAAGTTTCCTTCTTGGGGAAGTTCTGAATTGTCGCCGATATCTAATATTCCTTTTCAAATGTTTTCTTATCGAGTTATTGAGCGTGAAAAAGTAAGAACATGCTCTAGGGATTTCTCTGAATCTGGAAGTGATGCTTCGGCATGTGGAGATGAGCTTGTTACTTCAGGTGACGAGCCATTTCCATCTGTAACAGAAAAGAAATCTTCACTTGGACCTGAGATTGTAAACAACAGGAGGCTTACGACCAGGAAATCTCTAGATATGAGGATCAAACAACCAGTTACACCGAAAGGGAGACTAGATAGACCTCCACAAATGTCCCCTCGATTGCGAAGCATGCGGATTAATTCAGCTAAACATCTACTATCAAGTCCAAGGATAATAAGAAGATCATCTTCTGGTCATGTCTCAGACTCTGAGCTAGCTTAG |
| Protein sequence |
>Msa1317250 MEQFRQIGEALGSLKAVMVFRENIQINQRQCCLLLDVFSFAYESIADEIIQNLKFEEKNGKWKVLEHPLREIHKIFKEGEVYIRHCLEIKDFWANAITLCNNTDCVEFYIHNLLCCMPIVIEAIESASETSGWDQEEMQRKRLINSNKYRKEFRDMKLFKWKFGKQYLITQDLCNRYDTAWKEDRWFLFNKIHEKKVSDAATKYEKKLIDLLLRNSEVSESLEAKLLPSSILVGSKDYQVRRRIGNGNQYKEIQWLGECFVLRQCSGDIDALEGEIKELLSLSHPNIMDCLCGFTDEEKKECFLLMELMSKTLSNHIKEVHGPRKRLPFLLHVAVDIMLQIARGMEYLHSKKVYHGELNPSNILVKPRSTSPEGYLHCKVSGFGLPSGKDLNQKGNANQNGNLSFIWYSPEVLEEQEHSGGASISKYTEKSDVYSFGMVCFELLTGKVPFEDSHLQGEKMSRNIRAGERPLFPLNSPKYVINLTKRCWHTDPNQRPNFSSICRVLRYVKRFLVLNPGYSRETDPPVPLVDYCDVESALLRKFPSWGSSELSPISNIPFQMFSYRVIEREKVRTCSRDFSESGSDASACGDELVTSGDEPFPSVTEKKSSLGPEIVNNRRLTTRKSLDMRIKQPVTPKGRLDRPPQMSPRLRSMRINSAKHLLSSPRIIRRSSSGHVSDSELA* |
