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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547580 | XP_024638141.1 | 93.239 | 710 | 25 | 4 | 1 | 690 | 1 | 707 | 0.0 | 1362 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547580 | sp|Q9C810|Y1342_ARATH | 50.771 | 713 | 285 | 23 | 2 | 676 | 3 | 687 | 0.0 | 665 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547580 | A0A396I2D4 | 93.239 | 710 | 25 | 4 | 1 | 690 | 1 | 707 | 0.0 | 1362 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0540130 | Msa0547580 | 0.915033 | 9.509013e-85 | -8.615850e-47 |
| Msa0547580 | Msa1427940 | 0.951217 | 3.248497e-109 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547580 | MtrunA17_Chr4g0017901 | 93.239 | 710 | 25 | 4 | 1 | 690 | 1 | 707 | 0.0 | 1362 |
| Msa0547580 | MtrunA17_Chr1g0188421 | 48.644 | 553 | 258 | 10 | 137 | 673 | 3 | 545 | 8.67e-174 | 508 |
| Msa0547580 | MtrunA17_Chr5g0434341 | 28.333 | 660 | 334 | 18 | 80 | 652 | 98 | 705 | 5.75e-79 | 266 |
| Msa0547580 | MtrunA17_Chr5g0417171 | 30.342 | 468 | 264 | 15 | 233 | 654 | 1 | 452 | 2.40e-52 | 187 |
| Msa0547580 | MtrunA17_Chr1g0188411 | 49.107 | 112 | 50 | 2 | 1 | 105 | 2 | 113 | 6.65e-30 | 114 |
| Msa0547580 | MtrunA17_Chr5g0417181 | 50.877 | 57 | 27 | 1 | 166 | 222 | 8 | 63 | 3.47e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547580 | AT1G33420.1 | 50.771 | 713 | 285 | 23 | 2 | 676 | 3 | 687 | 0.0 | 665 |
| Msa0547580 | AT1G33420.2 | 50.167 | 598 | 245 | 17 | 105 | 676 | 12 | 582 | 0.0 | 559 |
| Msa0547580 | AT5G22260.1 | 29.605 | 608 | 361 | 15 | 81 | 648 | 81 | 661 | 9.29e-81 | 270 |
| Msa0547580 | AT1G66170.1 | 28.169 | 639 | 340 | 18 | 75 | 648 | 69 | 653 | 1.04e-74 | 255 |
| Msa0547580 | AT2G01810.1 | 30.943 | 265 | 137 | 6 | 74 | 328 | 72 | 300 | 1.70e-31 | 131 |
| Msa0547580 | AT2G01810.1 | 27.597 | 308 | 178 | 10 | 364 | 648 | 397 | 682 | 3.10e-27 | 118 |
| Msa0547580 | AT2G07714.1 | 33.898 | 118 | 69 | 2 | 207 | 315 | 1 | 118 | 2.13e-18 | 84.3 |
| Msa0547580 | AT1G32810.2 | 41.270 | 63 | 34 | 1 | 600 | 662 | 22 | 81 | 4.99e-11 | 66.6 |
Find 289 sgRNAs with CRISPR-Local
Find 786 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATTAATAGGAAAACAG+TGG | 0.680975 | 4_1:-40894524 | Msa0547580:CDS |
| AAAGCCTGGCCACGTGACAG+TGG | 0.608300 | 4_1:-40888652 | Msa0547580:three_prime_UTR |
| AAAGGCAGCACAATTAACTC+AGG | 0.618250 | 4_1:+40894352 | None:intergenic |
| AAATACTCAAGCTCTGTTCT+TGG | 0.279504 | 4_1:-40893616 | Msa0547580:three_prime_UTR |
| AACAACACACATCTTCTGCA+TGG | 0.642554 | 4_1:-40895590 | Msa0547580:CDS |
| AACACCGTTCCGGAACGGCA+CGG | 0.638834 | 4_1:+40896804 | None:intergenic |
| AACTGTCTGGAATCAATCTC+TGG | 0.444424 | 4_1:+40893746 | None:intergenic |
| AAGAGCTGAAGGCAGCTCCG+AGG | 0.699457 | 4_1:+40894435 | None:intergenic |
| AAGAGGATGTTACGAGGTCG+AGG | 0.557183 | 4_1:-40896636 | Msa0547580:CDS |
| AAGATCTTGCCATGCTGAGA+TGG | 0.467716 | 4_1:+40888843 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGAGAGAAAATCGTAAAGAT+CGG | + | chr4_1:40886917-40886936 | None:intergenic | 30.0% | |
| TGATGGAAAAAAACAAAGGA+TGG | - | chr4_1:40887882-40887901 | Msa0547580:three_prime_UTR | 30.0% | |
| AGCGATATCACTTCATAATA+AGG | - | chr4_1:40887927-40887946 | Msa0547580:three_prime_UTR | 30.0% | |
| AGTTTGAAGGATTGAAATTG+TGG | - | chr4_1:40888082-40888101 | Msa0547580:three_prime_UTR | 30.0% | |
| ATCTGATATTATGGGTTTCT+GGG | - | chr4_1:40888289-40888308 | Msa0547580:three_prime_UTR | 30.0% | |
| ATGGATTTGTCCAAGAAATT+TGG | - | chr4_1:40888441-40888460 | Msa0547580:three_prime_UTR | 30.0% | |
| ATAATCCAGTCCAAATTTCT+TGG | + | chr4_1:40888454-40888473 | None:intergenic | 30.0% | |
| GTAATTGGGGTTATGAATTT+GGG | - | chr4_1:40888514-40888533 | Msa0547580:three_prime_UTR | 30.0% | |
| TATTTCTCTTTACCAGTCAT+TGG | - | chr4_1:40888656-40888675 | Msa0547580:three_prime_UTR | 30.0% | |
| TTGAACCAATTCCAACAAAA+AGG | + | chr4_1:40888718-40888737 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 40886865 | 40896938 | 40886865 | ID=Msa0547580;Name=Msa0547580 |
| chr4_1 | mRNA | 40886865 | 40896938 | 40886865 | ID=Msa0547580-mRNA-1;Parent=Msa0547580;Name=Msa0547580-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|0.62|0.44|1|0.5|0.22|9|2577|690 |
| chr4_1 | exon | 40886865 | 40889121 | 40886865 | ID=Msa0547580-mRNA-1:exon:10483;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40893524 | 40894672 | 40893524 | ID=Msa0547580-mRNA-1:exon:10482;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40894752 | 40894945 | 40894752 | ID=Msa0547580-mRNA-1:exon:10481;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40894967 | 40895131 | 40894967 | ID=Msa0547580-mRNA-1:exon:10480;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40895150 | 40895375 | 40895150 | ID=Msa0547580-mRNA-1:exon:10479;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40895464 | 40895682 | 40895464 | ID=Msa0547580-mRNA-1:exon:10478;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40895777 | 40895903 | 40895777 | ID=Msa0547580-mRNA-1:exon:10477;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40896605 | 40896777 | 40896605 | ID=Msa0547580-mRNA-1:exon:10476;Parent=Msa0547580-mRNA-1 |
| chr4_1 | exon | 40896799 | 40896938 | 40896799 | ID=Msa0547580-mRNA-1:exon:10475;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40896799 | 40896938 | 40896799 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40896605 | 40896777 | 40896605 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40895777 | 40895903 | 40895777 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40895464 | 40895682 | 40895464 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40895150 | 40895375 | 40895150 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40894967 | 40895131 | 40894967 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40894752 | 40894945 | 40894752 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | CDS | 40893844 | 40894672 | 40893844 | ID=Msa0547580-mRNA-1:cds;Parent=Msa0547580-mRNA-1 |
| chr4_1 | three_prime_UTR | 40893524 | 40893843 | 40893524 | ID=Msa0547580-mRNA-1:three_prime_utr;Parent=Msa0547580-mRNA-1 |
| chr4_1 | three_prime_UTR | 40886865 | 40889121 | 40886865 | ID=Msa0547580-mRNA-1:three_prime_utr;Parent=Msa0547580-mRNA-1 |
| Gene Sequence |
>Msa0547580 ATGGTTATGAACGAAAGACCCACTAAGCGAGTCAAAAGAAGAGTCACAGCCGATCTTTACGATTTTCTCTCATTCCCAACCGCCGGAGATGTTTCTGCCGCCGCTTCTGCCGCCGTGCCGTTCCGGAACGGTGTTTACCGGTCTGCTTTTCCTCCTGAGCTTTTTCCTTCTCTGATGACGTGGCAGATCTTGTTTCGTGTTGGAGAAGTTGGTGATGGAGGTGATGTTTCGTCTGGTTTGGTTACTCTTGACATTGTTGAAGAGGATGTTACGAGGTCGAGGACGATTTATTGTGATCAATGTCGTGTTGTTGGATGGAGTGCTCATCCTGTGTGTCGAAAGCGATATCACTTCATAATAAGGTCTGCAACTGATGCCAATGCAGCATATCAAAGACCTTGCACTAAATGTGGAACTCCTCTCCAATTATCTGAAGCAAGGTGTAACTCATGTAATTTTGACATTTCTGCTGATGATCTTGAGGAATGGTTGTATCATCAACTTGAGGAGAACAACACACATCTTCTGCATGGTGTTGTACATGCTAATGGTTATGGTCACTTGCTTACTCTTAATGGAAGAGAAGGTGGCTCGTCGCTTCTCTCCGGATCTGATATTATGGGTTTCTGGGATAGGCTTTGTGCTGCTATGTCTGTTAGGAAGGTTACTGTGATGGATTTGTCCAAGAAATTTGGACTGGATTATCGTTTGCTTCATGCAATTGCCAGAGGGCATTCATGGTATGGTAATTGGGGTTATGAATTTGGGACTGGCTGCTATGCTCTTACCGAAGATGCATACAAGATGGCGGTAGATAACTTGTCCAACATGCCCCTGTCCTCATTATCGTTCCAGGATCGAGGACCTCATAACCCTGTACAGTCTTCATTGGCTGAAACTGAACTTCGCACAATGAAAGATCTCTTCTCCTTTTTGTTGGAATTGGTTCAAAATTTTCGTAAGCCCAGGAGTGCAGAGACTGCTAAACTGCATGAACAGACCACTCCCTGTAATTTATTATGTTCATGGACGAGAAATGATGTCGAAGAGGTGTTGCTTGCATCAAGTGCCTGTAATGAGGCCAAATGGGTGACAAGGCAAACTCTTAAAGGGGCAGTGGGTAGGCGTATTGGATCCCCAGAGCTTCTTGACTTCGGTCTTAAGCACTTGCAAGGGAAATCAGTTGCAAATGGAATGGTAGTTTGTTCTCGATGCAATCCCACATCTAGTGCTATTGAATTCAGATTGGCTCATGTGCCTAATGGATTAAGCTCCATTGCAAGCCATCCTTCCAAAGAGCAAGTGATTTCTGATTTGACATTCTTATTTAATTCAATTGTTCACCCTGAAAAAATGATCAAATATAGACCAAAGATTAATAGGAAAACAGTGGCTGATTCAGCCAGAAAGCTTCTTGACTGTAAGCAATTTATGAAGGATTACAAAATCGAGCAAATGACCTCGGAGCTGCCTTCAGCTCTTAAGATCTGGTGTCACGTGAAGCTTTCTGACCATCCTAAAGAAGACCACCCATCACCACCGCCTGAGTTAATTGTGCTGCCTTTGAATGCTACTAATGTTGACCTTTTGAATGAAGTCACTGGTGTTTTTCAAGAAGTATATGCAATGTACAAGAAGTTTGTAGCCGTGAAACTTCTAGGATATGGTTTAACCCGAGATCGTGTGTATACCCTAAAATTCCTTCTGGGGTCAACCAATGGTACAGTTGAAGTTCAAGGAGAATGCCCAGCTAAAAATGGCTTAGCACGATTCCGAATGGAGAGAGGAACAGAAGAATGGAAGGTTGACTGCATTTGTGGTACTAAGGATGATGATGGAGAAAGGATGTTAGCATGTGATACCTGTGGTGTCTGGCTGCATACCAGATGTGCTGGAATTGACAGTGCTGATGGGATGCCTTCCAAGTTTGTATGTAAGAGATGTGTTAACTCAATCCGTGTGGGAGATAACCAGGCTTGTAAATTAAACACATATTGCAGAGATGAAGCGGTGGCTACATATTCTGCACCTGTTCGTTGTAATATAAAAAATGTGAATTTTGGTGTACGTTGA |
| Protein sequence |
>Msa0547580 MVMNERPTKRVKRRVTADLYDFLSFPTAGDVSAAASAAVPFRNGVYRSAFPPELFPSLMTWQILFRVGEVGDGGDVSSGLVTLDIVEEDVTRSRTIYCDQCRVVGWSAHPVCRKRYHFIIRSATDANAAYQRPCTKCGTPLQLSEARCNSCNFDISADDLEEWLYHQLEENNTHLLHGVVHANGYGHLLTLNGREGGSSLLSGSDIMGFWDRLCAAMSVRKVTVMDLSKKFGLDYRLLHAIARGHSWYGNWGYEFGTGCYALTEDAYKMAVDNLSNMPLSSLSFQDRGPHNPVQSSLAETELRTMKDLFSFLLELVQNFRKPRSAETAKLHEQTTPCNLLCSWTRNDVEEVLLASSACNEAKWVTRQTLKGAVGRRIGSPELLDFGLKHLQGKSVANGMVVCSRCNPTSSAIEFRLAHVPNGLSSIASHPSKEQVISDLTFLFNSIVHPEKMIKYRPKINRKTVADSARKLLDCKQFMKDYKIEQMTSELPSALKIWCHVKLSDHPKEDHPSPPPELIVLPLNATNVDLLNEVTGVFQEVYAMYKKFVAVKLLGYGLTRDRVYTLKFLLGSTNGTVEVQGECPAKNGLARFRMERGTEEWKVDCICGTKDDDGERMLACDTCGVWLHTRCAGIDSADGMPSKFVCKRCVNSIRVGDNQACKLNTYCRDEAVATYSAPVRCNIKNVNFGVR* |
