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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202480 | RDX65489.1 | 53.630 | 427 | 114 | 5 | 196 | 586 | 51 | 429 | 8.05e-132 | 417 |
| Msa0202480 | RDX65489.1 | 61.433 | 586 | 160 | 9 | 26 | 586 | 124 | 668 | 0.0 | 687 |
| Msa0202480 | RDX65489.1 | 67.696 | 421 | 111 | 5 | 26 | 445 | 379 | 775 | 0.0 | 560 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202480 | A0A371EHW3 | 53.630 | 427 | 114 | 5 | 196 | 586 | 51 | 429 | 3.84e-132 | 417 |
| Msa0202480 | A0A371EHW3 | 61.433 | 586 | 160 | 9 | 26 | 586 | 124 | 668 | 0.0 | 687 |
| Msa0202480 | A0A371EHW3 | 67.696 | 421 | 111 | 5 | 26 | 445 | 379 | 775 | 0.0 | 560 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0096030 | Msa0202480 | 0.801688 | 8.003156e-49 | -8.615850e-47 |
| Msa0197660 | Msa0202480 | 0.819989 | 8.690290e-53 | -8.615850e-47 |
| Msa0202480 | Msa0239800 | 0.820122 | 8.101864e-53 | -8.615850e-47 |
| Msa0202480 | Msa0277820 | 0.802814 | 4.693473e-49 | -8.615850e-47 |
| Msa0202480 | Msa0317510 | 0.807917 | 3.999677e-50 | -8.615850e-47 |
| Msa0202480 | Msa0460130 | 0.808077 | 3.697082e-50 | -8.615850e-47 |
| Msa0202480 | Msa1415640 | 0.808317 | 3.286195e-50 | -8.615850e-47 |
| Msa0202480 | Msa1460050 | 0.802850 | 4.612699e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202480 | MtrunA17_Chr2g0299401 | 93.156 | 263 | 18 | 0 | 195 | 457 | 3 | 265 | 3.23e-172 | 492 |
| Msa0202480 | MtrunA17_Chr2g0299401 | 82.759 | 174 | 30 | 0 | 26 | 199 | 80 | 253 | 9.30e-97 | 298 |
| Msa0202480 | MtrunA17_Chr2g0299401 | 57.937 | 126 | 16 | 2 | 498 | 586 | 5 | 130 | 4.56e-32 | 125 |
| Msa0202480 | MtrunA17_Chr2g0299401 | 74.510 | 51 | 13 | 0 | 596 | 646 | 215 | 265 | 5.17e-18 | 84.7 |
| Msa0202480 | MtrunA17_Chr2g0299421 | 81.992 | 261 | 47 | 0 | 197 | 457 | 9 | 269 | 3.04e-151 | 439 |
| Msa0202480 | MtrunA17_Chr2g0299421 | 95.977 | 174 | 7 | 0 | 26 | 199 | 84 | 257 | 5.63e-116 | 348 |
| Msa0202480 | MtrunA17_Chr2g0299421 | 54.962 | 131 | 22 | 2 | 493 | 586 | 4 | 134 | 6.29e-34 | 130 |
| Msa0202480 | MtrunA17_Chr2g0299421 | 76.000 | 50 | 12 | 0 | 597 | 646 | 220 | 269 | 3.87e-18 | 85.1 |
| Msa0202480 | MtrunA17_Chr2g0299391 | 75.094 | 265 | 64 | 1 | 195 | 459 | 8 | 270 | 8.19e-134 | 395 |
| Msa0202480 | MtrunA17_Chr2g0299391 | 69.355 | 186 | 55 | 1 | 26 | 209 | 83 | 268 | 6.43e-81 | 258 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202480 | AT3G47590.1 | 59.690 | 258 | 99 | 2 | 196 | 453 | 53 | 305 | 1.16e-102 | 316 |
| Msa0202480 | AT3G47590.1 | 65.591 | 186 | 61 | 2 | 26 | 210 | 126 | 309 | 3.41e-79 | 254 |
| Msa0202480 | AT3G47590.1 | 43.333 | 120 | 30 | 2 | 503 | 586 | 59 | 176 | 8.12e-19 | 88.2 |
| Msa0202480 | AT3G47590.1 | 61.224 | 49 | 19 | 0 | 597 | 645 | 260 | 308 | 8.73e-11 | 64.3 |
| Msa0202480 | AT5G11910.4 | 60.236 | 254 | 98 | 1 | 197 | 450 | 35 | 285 | 2.66e-102 | 315 |
| Msa0202480 | AT5G11910.4 | 64.368 | 174 | 62 | 0 | 26 | 199 | 107 | 280 | 8.20e-74 | 241 |
| Msa0202480 | AT5G11910.4 | 42.149 | 121 | 34 | 2 | 501 | 586 | 38 | 157 | 6.05e-20 | 91.7 |
| Msa0202480 | AT5G11910.1 | 60.236 | 254 | 98 | 1 | 197 | 450 | 17 | 267 | 3.79e-102 | 314 |
| Msa0202480 | AT5G11910.1 | 64.368 | 174 | 62 | 0 | 26 | 199 | 89 | 262 | 9.61e-74 | 240 |
| Msa0202480 | AT5G11910.1 | 42.149 | 121 | 34 | 2 | 501 | 586 | 20 | 139 | 6.03e-20 | 91.3 |
Find 140 sgRNAs with CRISPR-Local
Find 1627 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGTTGTCAACGTCTC+TGG | 0.357635 | 2_1:-24908311 | Msa0202480:CDS |
| AAAACTGTTGTTAACCTCTC+TGG | 0.430009 | 2_1:-24915076 | Msa0202480:CDS |
| AAACTCGTGTGCATCTTGGA+CGG | 0.651312 | 2_1:+24906751 | None:intergenic |
| AAAGCGAAGGTACGTATACG+AGG | 0.632633 | 2_1:-24896794 | Msa0202480:CDS |
| AACATGTTCAAGGCGTGGTC+TGG | 0.398482 | 2_1:-24900561 | Msa0202480:CDS |
| AACTCATGTGCATCTTGAAC+CGG | 0.377677 | 2_1:+24914125 | None:intergenic |
| AACTCGTATGCATCTTGAAT+GGG | 0.397371 | 2_1:+24895567 | None:intergenic |
| AAGATTATTTGAAAAGAATT+CGG | 0.389987 | 2_1:-24915012 | Msa0202480:CDS |
| AAGATTATTTGGAAAGAATT+AGG | 0.246216 | 2_1:-24908247 | Msa0202480:CDS |
| AAGCGAAGGTACGTATACGA+GGG | 0.720170 | 2_1:-24896793 | Msa0202480:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTAGTGATTCACATTGTTA+AGG | - | chr2_1:24895272-24895291 | Msa0202480:three_prime_UTR | 30.0% | |
| AACAGAATGATCCTAGAATA+CGG | + | chr2_1:24895838-24895857 | None:intergenic | 30.0% | |
| AGCTTTGCATACTATAAATC+TGG | - | chr2_1:24896208-24896227 | Msa0202480:CDS | 30.0% | |
| ACCTCTTAAGATGAATAAGT+GGG | - | chr2_1:24896320-24896339 | Msa0202480:intron | 30.0% | |
| AAACTTAACTCAGTTTGGTA+TGG | + | chr2_1:24896391-24896410 | None:intergenic | 30.0% | |
| ACTCGAAAAATAAGCAAACT+GGG | + | chr2_1:24896821-24896840 | None:intergenic | 30.0% | |
| GTATTCTATGTTATAGCAGT+AGG | - | chr2_1:24897004-24897023 | Msa0202480:intron | 30.0% | |
| AAATCCCACAATTGAAAACA+CGG | + | chr2_1:24897215-24897234 | None:intergenic | 30.0% | |
| AAAAAGATGCCGCAAAAATA+CGG | + | chr2_1:24897258-24897277 | None:intergenic | 30.0% | |
| GATAATATGACATCTTCTAC+TGG | + | chr2_1:24897599-24897618 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 24895021 | 24921279 | 24895021 | ID=Msa0202480;Name=Msa0202480 |
| chr2_1 | mRNA | 24895021 | 24921279 | 24895021 | ID=Msa0202480-mRNA-1;Parent=Msa0202480;Name=Msa0202480-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|0.56|0.47|0.94|0.56|0.41|17|326|676 |
| chr2_1 | exon | 24895021 | 24895619 | 24895021 | ID=Msa0202480-mRNA-1:exon:9587;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24896205 | 24896245 | 24896205 | ID=Msa0202480-mRNA-1:exon:9586;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24896697 | 24896818 | 24896697 | ID=Msa0202480-mRNA-1:exon:9585;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24899041 | 24899143 | 24899041 | ID=Msa0202480-mRNA-1:exon:9584;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24900468 | 24900587 | 24900468 | ID=Msa0202480-mRNA-1:exon:9583;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24906624 | 24906811 | 24906624 | ID=Msa0202480-mRNA-1:exon:9582;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24907688 | 24907781 | 24907688 | ID=Msa0202480-mRNA-1:exon:9581;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24908213 | 24908377 | 24908213 | ID=Msa0202480-mRNA-1:exon:9580;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24908814 | 24908935 | 24908814 | ID=Msa0202480-mRNA-1:exon:9579;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24911114 | 24911196 | 24911114 | ID=Msa0202480-mRNA-1:exon:9578;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24911303 | 24911425 | 24911303 | ID=Msa0202480-mRNA-1:exon:9577;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24914034 | 24914184 | 24914034 | ID=Msa0202480-mRNA-1:exon:9576;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24914641 | 24914734 | 24914641 | ID=Msa0202480-mRNA-1:exon:9575;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24914978 | 24915142 | 24914978 | ID=Msa0202480-mRNA-1:exon:9574;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24915674 | 24915784 | 24915674 | ID=Msa0202480-mRNA-1:exon:9573;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24917193 | 24917234 | 24917193 | ID=Msa0202480-mRNA-1:exon:9572;Parent=Msa0202480-mRNA-1 |
| chr2_1 | exon | 24921246 | 24921279 | 24921246 | ID=Msa0202480-mRNA-1:exon:9571;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24921246 | 24921279 | 24921246 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24917193 | 24917234 | 24917193 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24915674 | 24915784 | 24915674 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24914978 | 24915142 | 24914978 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24914641 | 24914734 | 24914641 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24914034 | 24914184 | 24914034 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24911303 | 24911425 | 24911303 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24911114 | 24911196 | 24911114 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24908814 | 24908935 | 24908814 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24908213 | 24908377 | 24908213 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24907688 | 24907781 | 24907688 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24906624 | 24906811 | 24906624 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24900468 | 24900587 | 24900468 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24899041 | 24899143 | 24899041 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24896697 | 24896818 | 24896697 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24896205 | 24896245 | 24896205 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | CDS | 24895347 | 24895619 | 24895347 | ID=Msa0202480-mRNA-1:cds;Parent=Msa0202480-mRNA-1 |
| chr2_1 | three_prime_UTR | 24895021 | 24895346 | 24895021 | ID=Msa0202480-mRNA-1:three_prime_utr;Parent=Msa0202480-mRNA-1 |
| Gene Sequence |
>Msa0202480 ATGGAGAACCACTCCATGGAGGAGTCACAACGGACTATTGAGCATCATCAAAGAATCATAATACCCAACAAAAGTGGTTCGTTTGAGTACGGTAACTATTGGAAAGAAGTGGATGATTTACATGCTGTTGCTCAACATTTCCGTGAATCAAATCGTGTGATCCGTGCAATTGTTGGACATAGTAAAGGAGGTGATGTAGTCCTTCTGTATGCTTCCAAATATCACGACATTAAAACTGTTGTTAACCTCTCTGGACGTTATGATCTGAAGGCAGGCATTGAAGAACGCCTTGGCAAAGATTATTTGAAAAGAATTCGGAAGGACGGTTTCTTTGATGTGAAGAGGAGTTCAGGAAATTTGGACTACCGTGTTACTGAGGAAAGTTTGATGGATCGCTTGAGTACAAATATGCATGAAGCGTGCCTGCAGATTGACAAAGATTGCAGGGTCCTAACAATTCATGGTTCTTCTGACGAAATTATCCCGGTTCAAGATGCACATGAGTTTGCTAAGATCATACCAAATCACAAGTTAAATATCATTGAAGGAGCTGATCATGCATACAATAATCATCAAGATGAGTTATCCTCAGTTCTTCATCATCAGAGAGTGATAATACACAACAAAAACGGTGAAAAACTTGTTGGCATATTACATGAATGTTCTGGAACAACAACCAAAGACATTGTTATCTTGTGTCATGGCTTTCGTTGCTCTAAAGACACTGATCTCATATTGAACCTTGCTGTTGAATTGGAAAAGACACAAGTTAGTTCTTTCCGCTTTGACTTTTCTGGAAATGGGGAAAGCGAAGGTTCATTTAAGTTTGGTAACCAATGGACAGAGGTGGATGATTTATGTGCTGTTGTTCAACATTTCCGTGAATCAAATCGTGTAATCCGTGCAATTGTCGGACATAGTAAAGGAGGTAACATAGTGCTTCTCTATGCTTCCAAATATCACGACGTGAAAACTGTTGTCAACGTCTCTGGACGTTTTGATCTGAAGAGAGGCAATGAAGAACTCCTTGGTAAAGATTATTTGGAAAGAATTAGGAAGGAAGGTTTCATTGATGTGAAGAACAGCTCTGGAAGTTTTGATTACCGTGTTACTGAGGAAAGTTTGATGGATTGCTTAAGTATAAATATGCATGAATCATGCCTTCAGATTGACAGAGAATGCAGGGTCCTTACAATTCACGGTTCTTCTGATGAAATTAACACCGTCCAAGATGCACACGAGTTTGCTAAGATCATACCAAACCACAAGTTGCATATCACTGAAGGAGCTGATCATCTATACAATAATCATCAAGATGAGTTATCCTCGGTTGTTATCAGTTTCATCAAGGAAACCATTGACCACGACAAGGTGATAACATGTTCAAGGCGTGGTCTGGAAGGTAATCACAATAGGTTCGGCTGCACTAATCAAGGTGTGATGCCTATGCCTCCCAATTGGATTCCACCACCACCACCTCCCAACAATGAGGCTGTTCAGCATCATCAGAGAATCATAATACTCAACAAAAATGGTGAAAAACTTGTTGGCATATTACATGAAACTTCTGGAACAACCAACGACATTGTTATCTTGGAAAGCGAAGGTACGTATACGAGGGATAACTTTTGGGAAGAGGTGGATGATTTACGCGCTGTTGCTCAACATTTCCGTGAATCAAATCGTGTTATCCGTGCAATTGTCGGACATAGTAAAGGAGGTGACATAGTACTTCTCTATGCTTCCAAATATCATGACAGTCCTTTCAGTTTATGGTTCTTGCGGAACCCCATTCAAGATGCATACGAGTTCGATAAGATCATACCAAACCACAAGCTGCATATCATTGAAGGAGCTAATCATATGTACGACAATCATCAAGATTTGTTAACCTCAGTTGTCATCAGATTCATCAAAGAAACCATTGACCACAACAAATTGAAGAAAGTTGTTGTGTTTTCTAGTTGCATAGTCTTGTTCTTCTTTTCTTTTTTCTTCTTATTTGTTTGCTTTAGGGATTGGGGTGTGTGA |
| Protein sequence |
>Msa0202480 MENHSMEESQRTIEHHQRIIIPNKSGSFEYGNYWKEVDDLHAVAQHFRESNRVIRAIVGHSKGGDVVLLYASKYHDIKTVVNLSGRYDLKAGIEERLGKDYLKRIRKDGFFDVKRSSGNLDYRVTEESLMDRLSTNMHEACLQIDKDCRVLTIHGSSDEIIPVQDAHEFAKIIPNHKLNIIEGADHAYNNHQDELSSVLHHQRVIIHNKNGEKLVGILHECSGTTTKDIVILCHGFRCSKDTDLILNLAVELEKTQVSSFRFDFSGNGESEGSFKFGNQWTEVDDLCAVVQHFRESNRVIRAIVGHSKGGNIVLLYASKYHDVKTVVNVSGRFDLKRGNEELLGKDYLERIRKEGFIDVKNSSGSFDYRVTEESLMDCLSINMHESCLQIDRECRVLTIHGSSDEINTVQDAHEFAKIIPNHKLHITEGADHLYNNHQDELSSVVISFIKETIDHDKVITCSRRGLEGNHNRFGCTNQGVMPMPPNWIPPPPPPNNEAVQHHQRIIILNKNGEKLVGILHETSGTTNDIVILESEGTYTRDNFWEEVDDLRAVAQHFRESNRVIRAIVGHSKGGDIVLLYASKYHDSPFSLWFLRNPIQDAYEFDKIIPNHKLHIIEGANHMYDNHQDLLTSVVIRFIKETIDHNKLKKVVVFSSCIVLFFFSFFFLFVCFRDWGV* |
