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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166230 | RHN48923.1 | 98.073 | 467 | 8 | 1 | 1 | 466 | 24 | 490 | 0.0 | 961 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166230 | sp|Q9SCQ6|IDD2_ARATH | 54.180 | 323 | 118 | 6 | 9 | 310 | 44 | 357 | 2.58e-105 | 323 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166230 | A0A396H847 | 98.073 | 467 | 8 | 1 | 1 | 466 | 24 | 490 | 0.0 | 961 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1081750 | Msa1166230 | 0.805895 | 1.070519e-49 | -8.615850e-47 |
| Msa1166130 | Msa1166230 | 0.992324 | 1.297872e-192 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166230 | MtrunA17_Chr7g0268961 | 98.073 | 467 | 8 | 1 | 1 | 466 | 24 | 490 | 0.0 | 961 |
| Msa1166230 | MtrunA17_Chr1g0191991 | 62.893 | 318 | 88 | 7 | 9 | 314 | 73 | 372 | 2.07e-123 | 370 |
| Msa1166230 | MtrunA17_Chr2g0330171 | 55.667 | 300 | 83 | 5 | 9 | 293 | 56 | 320 | 1.08e-106 | 325 |
| Msa1166230 | MtrunA17_Chr8g0342421 | 54.294 | 326 | 119 | 7 | 9 | 321 | 72 | 380 | 1.53e-104 | 321 |
| Msa1166230 | MtrunA17_Chr7g0263941 | 51.821 | 357 | 123 | 10 | 9 | 351 | 44 | 365 | 1.24e-103 | 315 |
| Msa1166230 | MtrunA17_Chr4g0040571 | 50.000 | 360 | 108 | 8 | 9 | 297 | 49 | 407 | 3.16e-103 | 317 |
| Msa1166230 | MtrunA17_Chr8g0373541 | 85.621 | 153 | 22 | 0 | 9 | 161 | 43 | 195 | 8.30e-102 | 314 |
| Msa1166230 | MtrunA17_Chr1g0185121 | 55.518 | 299 | 117 | 4 | 9 | 302 | 50 | 337 | 2.17e-101 | 310 |
| Msa1166230 | MtrunA17_Chr1g0181381 | 82.822 | 163 | 27 | 1 | 9 | 170 | 48 | 210 | 7.39e-101 | 311 |
| Msa1166230 | MtrunA17_Chr1g0210821 | 82.353 | 153 | 27 | 0 | 9 | 161 | 54 | 206 | 2.56e-98 | 306 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166230 | AT3G50700.1 | 54.180 | 323 | 118 | 6 | 9 | 310 | 44 | 357 | 2.62e-106 | 323 |
| Msa1166230 | AT1G03840.1 | 85.806 | 155 | 22 | 0 | 9 | 163 | 51 | 205 | 4.17e-100 | 309 |
| Msa1166230 | AT1G03840.2 | 85.161 | 155 | 23 | 0 | 9 | 163 | 49 | 203 | 2.20e-99 | 307 |
| Msa1166230 | AT5G44160.2 | 72.632 | 190 | 44 | 2 | 8 | 189 | 7 | 196 | 1.29e-98 | 303 |
| Msa1166230 | AT5G66730.1 | 84.314 | 153 | 24 | 0 | 9 | 161 | 42 | 194 | 1.58e-98 | 305 |
| Msa1166230 | AT5G44160.1 | 73.016 | 189 | 43 | 2 | 9 | 189 | 47 | 235 | 5.65e-98 | 302 |
| Msa1166230 | AT1G55110.3 | 83.871 | 155 | 24 | 1 | 9 | 162 | 73 | 227 | 2.63e-97 | 300 |
| Msa1166230 | AT1G55110.1 | 83.871 | 155 | 24 | 1 | 9 | 162 | 73 | 227 | 2.63e-97 | 300 |
| Msa1166230 | AT1G55110.2 | 83.871 | 155 | 24 | 1 | 9 | 162 | 73 | 227 | 2.63e-97 | 300 |
| Msa1166230 | AT1G14580.1 | 81.699 | 153 | 28 | 0 | 9 | 161 | 63 | 215 | 3.58e-97 | 300 |
Find 96 sgRNAs with CRISPR-Local
Find 260 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACATGGCTGGTGTTAGTGG+TGG | 0.642397 | 7_4:+58297362 | Msa1166230:CDS |
| AAGGCTCACCAGAAAACATG+TGG | 0.716558 | 7_4:+58296324 | Msa1166230:CDS |
| AAGTGCAGATGTGAAGAAAA+AGG | 0.388942 | 7_4:+58296146 | Msa1166230:CDS |
| AATAATGATATTGGAATGTT+TGG | 0.379983 | 7_4:+58297470 | Msa1166230:CDS |
| AATAGATCCTACTGCTGAAG+TGG | 0.580873 | 7_4:+58295987 | Msa1166230:CDS |
| AATCTTCAGTTACACCGAAG+AGG | 0.641075 | 7_4:+58296090 | Msa1166230:CDS |
| AATGCAACCACTTCAGCAGT+AGG | 0.598028 | 7_4:-58295994 | None:intergenic |
| AATTGTTCAAATTTGATACA+TGG | 0.491018 | 7_4:+58297530 | Msa1166230:CDS |
| ACAATCTTCCATGGAAACTT+AGG | 0.513491 | 7_4:+58296115 | Msa1166230:CDS |
| ACCAGAAAACATGTGGTACT+AGG | 0.442303 | 7_4:+58296331 | Msa1166230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGTTGCCATTAATGTTGT+TGG | - | chr7_4:58296024-58296043 | None:intergenic | 30.0% | |
| ATTGCTGTACCTAGAAAATA+TGG | - | chr7_4:58296379-58296398 | None:intergenic | 30.0% | |
| GAATACAATAGGCCTAAAAA+TGG | + | chr7_4:58296497-58296516 | Msa1166230:intron | 30.0% | |
| CCTGTGTTATACAGAAAAAT+AGG | - | chr7_4:58296736-58296755 | None:intergenic | 30.0% | |
| ATTGAAGTAATTGAAGCTGT+TGG | - | chr7_4:58297105-58297124 | None:intergenic | 30.0% | |
| ATAGAACCAGAAACATGATT+AGG | - | chr7_4:58297275-58297294 | None:intergenic | 30.0% | |
| AGCAATGGAGAAATCAATTT+GGG | + | chr7_4:58297703-58297722 | Msa1166230:CDS | 30.0% | |
| TTTGTTGCCATTAATGTTGT+TGG | - | chr7_4:58296024-58296043 | None:intergenic | 30.0% | |
| ATTGCTGTACCTAGAAAATA+TGG | - | chr7_4:58296379-58296398 | None:intergenic | 30.0% | |
| GAATACAATAGGCCTAAAAA+TGG | + | chr7_4:58296497-58296516 | Msa1166230:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 58295967 | 58297733 | 58295967 | ID=Msa1166230;Name=Msa1166230 |
| chr7_4 | mRNA | 58295967 | 58297733 | 58295967 | ID=Msa1166230-mRNA-1;Parent=Msa1166230;Name=Msa1166230-mRNA-1;_AED=0.20;_eAED=0.30;_QI=0|0|0|1|1|1|2|0|466 |
| chr7_4 | exon | 58295967 | 58296388 | 58295967 | ID=Msa1166230-mRNA-1:exon:17860;Parent=Msa1166230-mRNA-1 |
| chr7_4 | exon | 58296755 | 58297733 | 58296755 | ID=Msa1166230-mRNA-1:exon:17861;Parent=Msa1166230-mRNA-1 |
| chr7_4 | CDS | 58295967 | 58296388 | 58295967 | ID=Msa1166230-mRNA-1:cds;Parent=Msa1166230-mRNA-1 |
| chr7_4 | CDS | 58296755 | 58297733 | 58296755 | ID=Msa1166230-mRNA-1:cds;Parent=Msa1166230-mRNA-1 |
| Gene Sequence |
>Msa1166230 ATGGATGATGTATTTTATGAAATAGATCCTACTGCTGAAGTGGTTGCATTATCTCCAACAACATTAATGGCAACAAATAGATTTGTGTGTGAGATATGCAACAAGGGATTTCAGAGGGACCAGAATCTTCAGTTACACCGAAGAGGTCACAATCTTCCATGGAAACTTAGGCAAAGAACAAGTGCAGATGTGAAGAAAAAGGTGTATGTGTGCCCTGAGCCATCATGTGTTCACCACAATCCAGCTCGTGCATTAGGTGACCTTACTGGCATCAAAAAACATTTTAGCCGCAAACATGGCGAGAAGAAATGGAAATGTGACAAGTGCTCTAAAAGATACGCTGTTCAATCAGATTGGAAGGCTCACCAGAAAACATGTGGTACTAGGGAATACAAATGTGATTGTGGAACCATATTTTCTAGGAGAGACAGTTTTATAACCCACAGAGCATTCTGTGATGCATTAACTGAAGAAAACAACAGAGTAAACCAAGGATTAACCAGTGGCATGCCACCAAACTTGCAAAGCCAAATGCATGATCCTATCTCTACCATGCCGCTAAAACCTGTTTCCAACACTTCCTCAGAATTAAACAATGACTATGACCCTAAAAACTCACTAAGATCCCCAACTCAAGAACATGCTCCAACATCATTCAGATCAACCAACAATGCATGTGGTGGCATGTTCTCAACTAGTGCAGGTGCACTTTTTGGTGGCCCAAAAACCTTGCCTCCATCTTCTTCAACCCTTCAACTTAGTTCCAATTCCAACAGCTTCAATTACTTCAATGACAATAAAAATGGAGGACTAATTGCTGGCATGGCTCAAATGTCGGCAACCGCTTTACTACAAAAAGCAGCACAAATGGGTGCTACTGCAAGCAATAGTGGGAACTCTTCCATGATGCAGAAAAGCTTTGTTAGTAGCATGGTTAGTCCTAATCATGTTTCTGGTTCTATCATGATGCATCATAACCAAAACCAACCCTCTTATGAACACTTTAATCCACTGCAGCATGAATTATCTAACATGGCTGGTGTTAGTGGTGGAGGAGCATTTACTAACCAATTGTTTCAAAAAGAACAACAAGAAATTTCATTACTGTTTGATAACAATACTAATGTGTCTACAATGAATAATGATATTGGAATGTTTGGTCATGGATTGATGAAGAATGTTGCACAAGAGGTTAGTAATTGTTCAAATTTGATACATGGAAGTGATGTGGCAACAGTCCATGATTTCTTGGGAATTGGAGGTTCAAGCTCAAGTTTGCATGAACCACAGCAACAAAGATTGGAAGCATTAAGTCAACAGAGGTTGGAAATTATGAATAATTTTCATCATCATCTTCCACATGAGGATTCAGCAATGGAGAAATCAATTTGGGATGTTTGA |
| Protein sequence |
>Msa1166230 MDDVFYEIDPTAEVVALSPTTLMATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLRQRTSADVKKKVYVCPEPSCVHHNPARALGDLTGIKKHFSRKHGEKKWKCDKCSKRYAVQSDWKAHQKTCGTREYKCDCGTIFSRRDSFITHRAFCDALTEENNRVNQGLTSGMPPNLQSQMHDPISTMPLKPVSNTSSELNNDYDPKNSLRSPTQEHAPTSFRSTNNACGGMFSTSAGALFGGPKTLPPSSSTLQLSSNSNSFNYFNDNKNGGLIAGMAQMSATALLQKAAQMGATASNSGNSSMMQKSFVSSMVSPNHVSGSIMMHHNQNQPSYEHFNPLQHELSNMAGVSGGGAFTNQLFQKEQQEISLLFDNNTNVSTMNNDIGMFGHGLMKNVAQEVSNCSNLIHGSDVATVHDFLGIGGSSSSLHEPQQQRLEALSQQRLEIMNNFHHHLPHEDSAMEKSIWDV* |
