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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187970 | XP_013444682.1 | 96.628 | 682 | 23 | 0 | 1 | 682 | 1 | 682 | 0.0 | 1365 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187970 | sp|P25848|PHY1_CERPU | 35.517 | 290 | 168 | 10 | 239 | 513 | 1005 | 1290 | 3.02e-37 | 153 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187970 | A0A072TMR2 | 96.628 | 682 | 23 | 0 | 1 | 682 | 1 | 682 | 0.0 | 1365 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0187970 | Msa0879640 | 0.981019 | 1.394619e-151 | -8.615850e-47 |
| Msa0187970 | Msa1236870 | 0.804102 | 2.537469e-49 | -8.615850e-47 |
| Msa0187970 | Msa1317250 | 0.849346 | 3.430024e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187970 | MtrunA17_Chr8g0347481 | 96.524 | 633 | 22 | 0 | 1 | 633 | 1 | 633 | 0.0 | 1267 |
| Msa0187970 | MtrunA17_Chr5g0396901 | 52.922 | 599 | 250 | 8 | 1 | 571 | 25 | 619 | 0.0 | 632 |
| Msa0187970 | MtrunA17_Chr4g0059121 | 29.084 | 251 | 151 | 9 | 275 | 524 | 107 | 331 | 5.73e-26 | 110 |
| Msa0187970 | MtrunA17_Chr3g0117731 | 29.885 | 261 | 153 | 9 | 275 | 532 | 106 | 339 | 1.10e-24 | 106 |
| Msa0187970 | MtrunA17_Chr4g0047211 | 30.172 | 232 | 135 | 8 | 275 | 505 | 90 | 295 | 1.39e-24 | 105 |
| Msa0187970 | MtrunA17_Chr4g0047191 | 30.172 | 232 | 135 | 8 | 275 | 505 | 95 | 300 | 1.75e-24 | 105 |
| Msa0187970 | MtrunA17_Chr4g0047201 | 29.310 | 232 | 137 | 8 | 275 | 505 | 251 | 456 | 7.83e-23 | 102 |
| Msa0187970 | MtrunA17_Chr7g0244621 | 34.078 | 179 | 105 | 5 | 328 | 505 | 140 | 306 | 9.25e-23 | 100 |
| Msa0187970 | MtrunA17_Chr4g0042731 | 30.201 | 298 | 155 | 16 | 237 | 512 | 142 | 408 | 4.29e-22 | 99.4 |
| Msa0187970 | MtrunA17_Chr4g0075541 | 29.707 | 239 | 138 | 8 | 272 | 507 | 133 | 344 | 7.09e-22 | 98.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187970 | AT1G64300.2 | 56.176 | 591 | 248 | 7 | 1 | 585 | 1 | 586 | 0.0 | 679 |
| Msa0187970 | AT1G64300.1 | 56.176 | 591 | 248 | 7 | 1 | 585 | 1 | 586 | 0.0 | 679 |
| Msa0187970 | AT5G41730.2 | 49.093 | 717 | 324 | 10 | 1 | 682 | 1 | 711 | 0.0 | 675 |
| Msa0187970 | AT5G41730.1 | 49.093 | 717 | 324 | 10 | 1 | 682 | 1 | 711 | 0.0 | 675 |
| Msa0187970 | AT1G01450.1 | 65.404 | 396 | 123 | 8 | 225 | 609 | 17 | 409 | 4.57e-171 | 498 |
| Msa0187970 | AT3G46930.1 | 28.511 | 235 | 141 | 6 | 279 | 513 | 221 | 428 | 1.21e-24 | 108 |
| Msa0187970 | AT3G46930.2 | 28.511 | 235 | 141 | 6 | 279 | 513 | 256 | 463 | 1.54e-24 | 108 |
| Msa0187970 | AT5G58950.1 | 30.213 | 235 | 131 | 11 | 275 | 505 | 258 | 463 | 6.22e-24 | 106 |
| Msa0187970 | AT1G14000.1 | 32.245 | 245 | 134 | 11 | 275 | 512 | 208 | 427 | 3.01e-21 | 97.4 |
| Msa0187970 | AT1G62400.1 | 28.814 | 236 | 139 | 7 | 272 | 505 | 132 | 340 | 6.30e-21 | 95.9 |
Find 138 sgRNAs with CRISPR-Local
Find 175 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTAAGAACATGCTCTA+GGG | 0.583309 | 2_1:+2918157 | Msa0187970:CDS |
| AAAGGAAATGCAAATCAAAA+TGG | 0.346804 | 2_1:+2917630 | Msa0187970:CDS |
| AAATCTGATGTGTATAGTTT+TGG | 0.298999 | 2_1:+2917738 | Msa0187970:CDS |
| AACATCTACTATCAAGTCCA+AGG | 0.585942 | 2_1:+2918894 | Msa0187970:CDS |
| AAGAAGGAGAAGTTTACATT+AGG | 0.365904 | 2_1:+2916680 | Msa0187970:CDS |
| AAGAATGGTAATCGCTTCCT+CGG | 0.549459 | 2_1:-2917417 | None:intergenic |
| AAGAGGAGATGCAAAGGAAG+AGG | 0.546379 | 2_1:+2916854 | Msa0187970:CDS |
| AATATAATGGATTGTCTTTG+TGG | 0.338241 | 2_1:+2917306 | Msa0187970:CDS |
| AATCATATTAAAGAGGTTCA+TGG | 0.469241 | 2_1:+2917393 | Msa0187970:CDS |
| AATCGAGGGGACATTTGTGG+AGG | 0.676501 | 2_1:-2918845 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAATTTAGACAAATTGGTG+AGG | + | chr2_1:2916456-2916475 | Msa0187970:CDS | 30.0% | |
| CTGAAATTTGAAGAGAAGAA+TGG | + | chr2_1:2916607-2916626 | Msa0187970:CDS | 30.0% | |
| ATCTTATGGATCTCTCTTAA+GGG | - | chr2_1:2916655-2916674 | None:intergenic | 30.0% | |
| AATCTTATGGATCTCTCTTA+AGG | - | chr2_1:2916656-2916675 | None:intergenic | 30.0% | |
| AAGAAGGAGAAGTTTACATT+AGG | + | chr2_1:2916680-2916699 | Msa0187970:CDS | 30.0% | |
| TGTATTGTTACACAAGGTAA+TGG | - | chr2_1:2916740-2916759 | None:intergenic | 30.0% | |
| ACAATCTGTATTGTTACACA+AGG | - | chr2_1:2916746-2916765 | None:intergenic | 30.0% | |
| ATCAGTACAAAGAGATTCAA+TGG | + | chr2_1:2917193-2917212 | Msa0187970:CDS | 30.0% | |
| TACAAAGAGATTCAATGGTT+AGG | + | chr2_1:2917198-2917217 | Msa0187970:CDS | 30.0% | |
| GCTTTCACATCCAAATATAA+TGG | + | chr2_1:2917293-2917312 | Msa0187970:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 2916451 | 2919120 | 2916451 | ID=Msa0187970;Name=Msa0187970 |
| chr2_1 | mRNA | 2916451 | 2919120 | 2916451 | ID=Msa0187970-mRNA-1;Parent=Msa0187970;Name=Msa0187970-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|1|0.5|1|1|1|2|153|682 |
| chr2_1 | exon | 2916451 | 2918350 | 2916451 | ID=Msa0187970-mRNA-1:exon:1289;Parent=Msa0187970-mRNA-1 |
| chr2_1 | exon | 2918819 | 2919120 | 2918819 | ID=Msa0187970-mRNA-1:exon:1290;Parent=Msa0187970-mRNA-1 |
| chr2_1 | CDS | 2916451 | 2918350 | 2916451 | ID=Msa0187970-mRNA-1:cds;Parent=Msa0187970-mRNA-1 |
| chr2_1 | CDS | 2918819 | 2918967 | 2918819 | ID=Msa0187970-mRNA-1:cds;Parent=Msa0187970-mRNA-1 |
| chr2_1 | three_prime_UTR | 2918968 | 2919120 | 2918968 | ID=Msa0187970-mRNA-1:three_prime_utr;Parent=Msa0187970-mRNA-1 |
| Gene Sequence |
>Msa0187970 ATGGAACAATTTAGACAAATTGGTGAGGCACTAGGAAGTTTGAAAGCTGTGATGGTGTTCAGAGAGAACATTCAAATCAATCAGAGACAATGTTGTCTTCTTCTAGATGTCTTCAGCTTTGCATATGAATCTATTGCAGATGAGATCATACAGAATCTGAAATTTGAAGAGAAGAATGGAAAGTGGAAAGTTCTAGAACACCCCTTAAGAGAGATCCATAAGATTTTCAAAGAAGGAGAAGTTTACATTAGGCATTGTTTGGAAATAAAGGATTTTTGGGCTAATGCCATTACCTTGTGTAACAATACAGATTGTGTTGAGTTTTACATACACAATTTGCTATGTTGCATGCCTATTGTGATCGAAGCTATTGAATCGGCTTCCGAGACATCAGGTTGGGATCAAGAGGAGATGCAAAGGAAGAGGCTTATCAATTCAAATAAGTATAGAAAAGAATTTCGAGACATGAAGCTTTTCAAGTGGAAATTTGGGAAGCAGTACCTCATTACTCAGGATTTGTGCAACCGCTATGATACAGCTTGGAAGGAAGATAGATGGTTTCTTTTCAACAAAATCCATGAAAAAAAAGTGTCAGATGCAGCAACAAAGTACGAGAAAAAATTAATCGATTTACTTTCGAGGAATTCAGAAGTATCAGAATCACTCGAAGCCAAGCTTCTTCCAAGTTCAATATTGGTCGGTTCTAAGGACTATCAGGTGAGGAGAAGAATAGGGAATGGAAATCAGTACAAAGAGATTCAATGGTTAGGTGAATGTTTTGTTTTAAGACAATGTTCTGGTGACATTGATGCTTTGGAAGGTGAGATTAAAGAACTTTTATCGCTTTCACATCCAAATATAATGGATTGTCTTTGTGGTTTTACTGATGAGGAGAAGAAAGAATGTTTCCTGTTGATGGAACTGATGAGCAAAACACTTAGCAATCATATTAAAGAGGTTCATGGTCCGAGGAAGCGATTACCATTCTTGCTTCATGTCGCGGTTGATATTATGCTTCAGATTGCAAGAGGAATGGAATATCTTCATTCAAAGAAAGTGTATCATGGAGAATTAAACCCTTCAAACATTCTTGTTAAGCCTAGAAGTACCTCTCCAGAAGGTTACTTGCATTGCAAGGTATCAGGTTTCGGTCTACCTTCTGGTAAGGACTTGAACCAGAAAGGAAATGCAAATCAAAATGGAAACCTCTCATTCATTTGGTACTCTCCAGAGGTACTTGAAGAGCAAGAACACTCAGGGGGTGCGTCGATATCCAAGTACACAGAGAAATCTGATGTGTATAGTTTTGGAATGGTTTGCTTTGAGCTTCTCACCGGAAAAGTTCCTTTTGAAGATAGTCATCTTCAAGGGGAGAAAATGAGCAGAAACATAAGAGCAGGAGAGAGGCCACTTTTTCCACTCAATTCACCAAAATATGTTATCAACTTAACAAAGAGATGTTGGCATGCCGATCCAAATCAACGTCCGAATTTTTCGTCCATATGTAGAGTTCTTCGTTATGTAAAAAGATTTCTTGTATTGAATCCTGGTTACAATAGAGAGACGGACCCACCAGTGCCACTTGTAGATTACTGTGATATAGAGTCAGCACTTTTGAGGAAGTTTCCTTCTTGGGGAAGTTTTGAATTGTCGCCAATATCTAATATTCCTTTTCAAATGTTTTCTTATCTAGTTATTGAGCGTGAAAAAGTAAGAACATGCTCTAGGGATTTCTCTGAATCTGGAAGTGATGCTTCGGCATGTGGAGATGAGCTTGTTACTTCAGGTGATGAGCCATTTCCATCTGTAACAGAAAAGAAATCTTCACTTGGACCTGAGATTACAAACAACAGGAGGCTTACGACCAGGAAATCTCTAGATATGAGGATCAAACAACCAGTTACACCAAAAGGGAGACTAGATAGACCTCCACAAATGTCCCCTCGATTGCGAAGCATGCGGATTAATTCAGCTAAACATCTACTATCAAGTCCAAGGATAATAAGAAGATCATCTTCTGGTCATGTCTCAGACTCTGAGCTAGCTTAG |
| Protein sequence |
>Msa0187970 MEQFRQIGEALGSLKAVMVFRENIQINQRQCCLLLDVFSFAYESIADEIIQNLKFEEKNGKWKVLEHPLREIHKIFKEGEVYIRHCLEIKDFWANAITLCNNTDCVEFYIHNLLCCMPIVIEAIESASETSGWDQEEMQRKRLINSNKYRKEFRDMKLFKWKFGKQYLITQDLCNRYDTAWKEDRWFLFNKIHEKKVSDAATKYEKKLIDLLSRNSEVSESLEAKLLPSSILVGSKDYQVRRRIGNGNQYKEIQWLGECFVLRQCSGDIDALEGEIKELLSLSHPNIMDCLCGFTDEEKKECFLLMELMSKTLSNHIKEVHGPRKRLPFLLHVAVDIMLQIARGMEYLHSKKVYHGELNPSNILVKPRSTSPEGYLHCKVSGFGLPSGKDLNQKGNANQNGNLSFIWYSPEVLEEQEHSGGASISKYTEKSDVYSFGMVCFELLTGKVPFEDSHLQGEKMSRNIRAGERPLFPLNSPKYVINLTKRCWHADPNQRPNFSSICRVLRYVKRFLVLNPGYNRETDPPVPLVDYCDIESALLRKFPSWGSFELSPISNIPFQMFSYLVIEREKVRTCSRDFSESGSDASACGDELVTSGDEPFPSVTEKKSSLGPEITNNRRLTTRKSLDMRIKQPVTPKGRLDRPPQMSPRLRSMRINSAKHLLSSPRIIRRSSSGHVSDSELA* |
