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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1289540 | XP_039685015.1 | 74.183 | 306 | 46 | 5 | 2 | 283 | 1 | 297 | 4.99e-141 | 425 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1289540 | sp|C0LGP4|Y3475_ARATH | 34.628 | 309 | 170 | 7 | 2 | 281 | 202 | 507 | 5.33e-37 | 143 |
| Msa1289540 | sp|C0LGP4|Y3475_ARATH | 32.721 | 272 | 158 | 8 | 11 | 272 | 337 | 593 | 5.02e-21 | 97.1 |
| Msa1289540 | sp|C0LGP4|Y3475_ARATH | 26.807 | 332 | 178 | 7 | 6 | 305 | 86 | 384 | 1.78e-16 | 83.6 |
| Msa1289540 | sp|C0LGP4|Y3475_ARATH | 32.099 | 162 | 106 | 2 | 137 | 294 | 66 | 227 | 1.48e-13 | 74.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1289540 | A0A396GJ97 | 71.803 | 305 | 63 | 3 | 2 | 283 | 26 | 330 | 6.56e-137 | 417 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0142230 | Msa1289540 | 0.800666 | 1.295155e-48 | -8.615850e-47 |
| Msa0533430 | Msa1289540 | 0.807068 | 6.053903e-50 | -8.615850e-47 |
| Msa0629930 | Msa1289540 | 0.832962 | 7.008114e-56 | -8.615850e-47 |
| Msa0629940 | Msa1289540 | 0.826655 | 2.408241e-54 | -8.615850e-47 |
| Msa0784580 | Msa1289540 | 0.800307 | 1.532604e-48 | -8.615850e-47 |
| Msa0818010 | Msa1289540 | 0.811767 | 5.938458e-51 | -8.615850e-47 |
| Msa0818030 | Msa1289540 | 0.830906 | 2.255360e-55 | -8.615850e-47 |
| Msa0912500 | Msa1289540 | 0.830211 | 3.337209e-55 | -8.615850e-47 |
| Msa1006250 | Msa1289540 | 0.833917 | 4.048731e-56 | -8.615850e-47 |
| Msa1288000 | Msa1289540 | 0.802209 | 6.253827e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1289540 | MtrunA17_Chr8g0363371 | 71.803 | 305 | 63 | 3 | 2 | 283 | 26 | 330 | 1.26e-140 | 417 |
| Msa1289540 | MtrunA17_Chr8g0363371 | 28.906 | 256 | 158 | 7 | 2 | 248 | 175 | 415 | 1.41e-12 | 68.2 |
| Msa1289540 | MtrunA17_Chr8g0362871 | 72.787 | 305 | 60 | 3 | 2 | 283 | 4 | 308 | 5.01e-140 | 414 |
| Msa1289540 | MtrunA17_Chr8g0362871 | 28.058 | 278 | 156 | 8 | 2 | 272 | 153 | 393 | 1.55e-14 | 73.9 |
| Msa1289540 | MtrunA17_Chr8g0362871 | 29.583 | 240 | 138 | 9 | 2 | 226 | 200 | 423 | 8.26e-14 | 72.0 |
| Msa1289540 | MtrunA17_Chr8g0363121 | 73.115 | 305 | 59 | 3 | 2 | 283 | 14 | 318 | 1.12e-138 | 410 |
| Msa1289540 | MtrunA17_Chr8g0363121 | 27.711 | 249 | 123 | 4 | 2 | 248 | 210 | 403 | 2.79e-12 | 67.4 |
| Msa1289540 | MtrunA17_Chr8g0362841 | 72.131 | 305 | 62 | 3 | 2 | 283 | 56 | 360 | 3.52e-138 | 410 |
| Msa1289540 | MtrunA17_Chr8g0362841 | 28.044 | 271 | 142 | 5 | 2 | 272 | 228 | 445 | 1.67e-14 | 73.9 |
| Msa1289540 | MtrunA17_Chr8g0362961 | 73.115 | 305 | 59 | 3 | 2 | 283 | 454 | 758 | 1.41e-136 | 416 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1289540 | AT3G47570.1 | 34.628 | 309 | 170 | 7 | 2 | 281 | 202 | 507 | 5.42e-38 | 143 |
| Msa1289540 | AT3G47570.1 | 32.721 | 272 | 158 | 8 | 11 | 272 | 337 | 593 | 5.10e-22 | 97.1 |
| Msa1289540 | AT3G47570.1 | 26.807 | 332 | 178 | 7 | 6 | 305 | 86 | 384 | 1.81e-17 | 83.6 |
| Msa1289540 | AT3G47570.1 | 32.099 | 162 | 106 | 2 | 137 | 294 | 66 | 227 | 1.50e-14 | 74.7 |
| Msa1289540 | AT5G48940.1 | 34.884 | 301 | 165 | 8 | 2 | 277 | 291 | 585 | 2.39e-32 | 127 |
| Msa1289540 | AT5G48940.1 | 34.021 | 291 | 166 | 7 | 5 | 284 | 125 | 400 | 2.84e-30 | 121 |
| Msa1289540 | AT5G48940.1 | 31.818 | 308 | 178 | 9 | 2 | 283 | 339 | 640 | 3.39e-27 | 112 |
| Msa1289540 | AT5G48940.1 | 31.206 | 282 | 161 | 5 | 2 | 281 | 267 | 517 | 8.17e-26 | 108 |
| Msa1289540 | AT5G48940.1 | 31.959 | 291 | 149 | 9 | 2 | 282 | 219 | 470 | 2.06e-19 | 89.4 |
| Msa1289540 | AT5G48940.1 | 29.615 | 260 | 134 | 7 | 1 | 250 | 458 | 678 | 7.36e-14 | 72.8 |
Find 52 sgRNAs with CRISPR-Local
Find 138 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACTTCAAGTATTGTCTCT+TGG | 0.473865 | 8_3:-43744615 | Msa1289540:CDS |
| AAATCTCCAAAAGCAATATT+GGG | 0.425466 | 8_3:+43744936 | None:intergenic |
| AATTGTAGATACTGCAGGTT+AGG | 0.427202 | 8_3:+43745059 | None:intergenic |
| ACTCATGTTTCCAACTTCTA+GGG | 0.445467 | 8_3:+43744710 | None:intergenic |
| ACTCTACCCAATATTGCTTT+TGG | 0.265977 | 8_3:-43744942 | Msa1289540:CDS |
| AGACTATATCCCGTATTTGA+TGG | 0.438128 | 8_3:+43745083 | None:intergenic |
| ATCACCAATGAAAGCATTAG+AGG | 0.377482 | 8_3:+43744377 | None:intergenic |
| ATCTTTGAGACTCCAAAGAG+AGG | 0.634698 | 8_3:+43744419 | None:intergenic |
| CAAATATCTACAGTTTGTCA+AGG | 0.557840 | 8_3:+43744842 | None:intergenic |
| CAAATCTTGTAAGGAACTGA+TGG | 0.554401 | 8_3:+43744272 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTCAACATATCATCACTGAT+AGG | - | chr8_3:43744351-43744370 | Msa1289540:CDS | 30.0% | |
| CAAATATCTACAGTTTGTCA+AGG | + | chr8_3:43744655-43744674 | None:intergenic | 30.0% | |
| GCACAATTATGTGAAATTGA+TGG | - | chr8_3:43744753-43744772 | Msa1289540:intron | 30.0% | |
| TCTCTTAGAGAATTGAACAT+AGG | - | chr8_3:43745023-43745042 | Msa1289540:intron | 30.0% | |
| TTCAACATATCATCACTGAT+AGG | - | chr8_3:43744351-43744370 | Msa1289540:CDS | 30.0% | |
| CAAATATCTACAGTTTGTCA+AGG | + | chr8_3:43744655-43744674 | None:intergenic | 30.0% | |
| GCACAATTATGTGAAATTGA+TGG | - | chr8_3:43744753-43744772 | Msa1289540:intron | 30.0% | |
| TCTCTTAGAGAATTGAACAT+AGG | - | chr8_3:43745023-43745042 | Msa1289540:intron | 30.0% | |
| CGTATTTGATGGAATTATCC+CGG | + | chr8_3:43744403-43744422 | None:intergenic | 35.0% | |
| CGGGATAATTCCATCAAATA+CGG | - | chr8_3:43744401-43744420 | Msa1289540:CDS | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 43744259 | 43745257 | 43744259 | ID=Msa1289540;Name=Msa1289540 |
| chr8_3 | mRNA | 43744259 | 43745257 | 43744259 | ID=Msa1289540-mRNA-1;Parent=Msa1289540;Name=Msa1289540-mRNA-1;_AED=0.43;_eAED=0.48;_QI=2|0|0|1|0|0|5|0|307 |
| chr8_3 | exon | 43745071 | 43745257 | 43745071 | ID=Msa1289540-mRNA-1:exon:11952;Parent=Msa1289540-mRNA-1 |
| chr8_3 | exon | 43744779 | 43745022 | 43744779 | ID=Msa1289540-mRNA-1:exon:11951;Parent=Msa1289540-mRNA-1 |
| chr8_3 | exon | 43744565 | 43744763 | 43744565 | ID=Msa1289540-mRNA-1:exon:11950;Parent=Msa1289540-mRNA-1 |
| chr8_3 | exon | 43744341 | 43744558 | 43744341 | ID=Msa1289540-mRNA-1:exon:11949;Parent=Msa1289540-mRNA-1 |
| chr8_3 | exon | 43744259 | 43744333 | 43744259 | ID=Msa1289540-mRNA-1:exon:11948;Parent=Msa1289540-mRNA-1 |
| chr8_3 | five_prime_UTR | 43745256 | 43745257 | 43745256 | ID=Msa1289540-mRNA-1:five_prime_utr;Parent=Msa1289540-mRNA-1 |
| chr8_3 | CDS | 43745071 | 43745255 | 43745071 | ID=Msa1289540-mRNA-1:cds;Parent=Msa1289540-mRNA-1 |
| chr8_3 | CDS | 43744779 | 43745022 | 43744779 | ID=Msa1289540-mRNA-1:cds;Parent=Msa1289540-mRNA-1 |
| chr8_3 | CDS | 43744565 | 43744763 | 43744565 | ID=Msa1289540-mRNA-1:cds;Parent=Msa1289540-mRNA-1 |
| chr8_3 | CDS | 43744341 | 43744558 | 43744341 | ID=Msa1289540-mRNA-1:cds;Parent=Msa1289540-mRNA-1 |
| chr8_3 | CDS | 43744259 | 43744333 | 43744259 | ID=Msa1289540-mRNA-1:cds;Parent=Msa1289540-mRNA-1 |
| Gene Sequence |
>Msa1289540 ATGATGCCTAGGGAGATTGGCTATTTTGATAAACTTGAGAGGCTATTGTTGACAAACAATAGCCTTAGTGGATCTATCCCTTCCAAAATCTTCAACATATCATCACTGATAGGCTTGTTTCTTGAACAAAATCACCTCTCCGGGATAATTCCATCAAATACGGGATATAGTCTTCCTAACCTGCATATATTCAACTATTCTAATCTTATTGTATTTCAATTGGATCACAACGCATTCAGTGGAACTCTACCCAATATTGCTTTTGGAGATTTAAGGTTCCTCAAATCATTTTACACATATGGCAACAATTTGACAATAGAAGATTCTCATCAATTCTTTACTTCCTTGACAAACTGTAGATATTTGAAATATCTTGACTTATCAGGGAATCATATACCCAATCTTCCTAAATCAATTGGAAACCTAACTGCACAATTATGTGAAATTGATGGTAATATTCCCCTAGAAGTTGGAAACATGAGTAACTTGCTATCTTTTAATCTGTATGGCAATAATATAAATGGACCAATACCTCGTTCGCTCAAAGCGTTACAGAAACTTCAAGTATTGTCTCTTGGCTACAATGGACTCCAAAAATCATTTATTGATAAGCTTTGTGTAATTAAGAGTGAGTTGTATCTAGAAAATAATAAGCTTTCTGGTGTTTTACCAACATGTTTGGGAAATATGACTTCTCTTAGAGAATTGAACATAGGATCTAACGATTTGAACTCTAAGATACCGTCCTCTCTTTGGAGTCTCAAAGATATCTTACTAGTAAATTTGTCCTCTAATGCTTTCATTGGTGATCTTCCACCTGAGATTGGGAATTTGAGAGAAATTGTAATCTATCAAGAAATCATATTTCAAGAAACATTCCCACAACCATCAGTTCCTTACAAGATTTGCAGACTCTCTCTT |
| Protein sequence |
>Msa1289540 MMPREIGYFDKLERLLLTNNSLSGSIPSKIFNISSLIGLFLEQNHLSGIIPSNTGYSLPNLHIFNYSNLIVFQLDHNAFSGTLPNIAFGDLRFLKSFYTYGNNLTIEDSHQFFTSLTNCRYLKYLDLSGNHIPNLPKSIGNLTAQLCEIDGNIPLEVGNMSNLLSFNLYGNNINGPIPRSLKALQKLQVLSLGYNGLQKSFIDKLCVIKSELYLENNKLSGVLPTCLGNMTSLRELNIGSNDLNSKIPSSLWSLKDILLVNLSSNAFIGDLPPEIGNLREIVIYQEIIFQETFPQPSVPYKICRLSL |
