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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0480130 | XP_013460710.1 | 88.139 | 489 | 11 | 1 | 32 | 473 | 1 | 489 | 0.0 | 888 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0480130 | A0A072UY59 | 88.139 | 489 | 11 | 1 | 32 | 473 | 1 | 489 | 0.0 | 888 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0375270 | Msa0480130 | 0.845484 | 3.947447e-59 | -8.615850e-47 |
| Msa0404850 | Msa0480130 | 0.808199 | 3.483391e-50 | -8.615850e-47 |
| Msa0415910 | Msa0480130 | 0.860232 | 2.384583e-63 | -8.615850e-47 |
| Msa0474870 | Msa0480130 | 0.800922 | 1.148268e-48 | -8.615850e-47 |
| Msa0474890 | Msa0480130 | 0.808224 | 3.439989e-50 | -8.615850e-47 |
| Msa0480130 | Msa0508000 | 0.862118 | 6.352732e-64 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0480130 | MtrunA17_Chr3g0112211 | 88.139 | 489 | 11 | 1 | 32 | 473 | 1 | 489 | 0.0 | 888 |
| Msa0480130 | MtrunA17_Chr7g0239421 | 46.078 | 510 | 204 | 9 | 32 | 472 | 1 | 508 | 1.33e-151 | 441 |
| Msa0480130 | MtrunA17_Chr8g0348511 | 46.265 | 415 | 167 | 5 | 113 | 473 | 77 | 489 | 1.09e-130 | 387 |
| Msa0480130 | MtrunA17_Chr8g0387371 | 43.066 | 411 | 178 | 4 | 113 | 469 | 105 | 513 | 2.98e-115 | 348 |
| Msa0480130 | MtrunA17_Chr2g0327551 | 49.547 | 331 | 162 | 3 | 113 | 439 | 45 | 374 | 2.87e-113 | 341 |
| Msa0480130 | MtrunA17_Chr4g0030331 | 50.152 | 329 | 159 | 3 | 113 | 437 | 107 | 434 | 1.38e-112 | 341 |
| Msa0480130 | MtrunA17_Chr4g0024001 | 41.463 | 410 | 185 | 5 | 113 | 473 | 74 | 477 | 3.47e-109 | 332 |
| Msa0480130 | MtrunA17_Chr2g0322991 | 41.568 | 421 | 185 | 6 | 109 | 471 | 53 | 470 | 9.72e-101 | 310 |
| Msa0480130 | MtrunA17_Chr4g0023991 | 39.524 | 420 | 198 | 5 | 106 | 471 | 56 | 473 | 3.74e-99 | 306 |
| Msa0480130 | MtrunA17_Chr5g0395861 | 45.345 | 333 | 178 | 2 | 114 | 442 | 126 | 458 | 2.16e-98 | 306 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0480130 | AT3G11420.1 | 49.598 | 498 | 179 | 7 | 41 | 471 | 13 | 505 | 2.36e-164 | 474 |
| Msa0480130 | AT2G37730.1 | 48.201 | 417 | 159 | 3 | 113 | 472 | 96 | 512 | 1.55e-146 | 429 |
| Msa0480130 | AT4G23490.1 | 49.415 | 342 | 165 | 3 | 113 | 446 | 109 | 450 | 4.35e-116 | 351 |
| Msa0480130 | AT5G41460.1 | 49.697 | 330 | 160 | 3 | 113 | 436 | 110 | 439 | 1.32e-114 | 347 |
| Msa0480130 | AT4G15240.1 | 42.523 | 428 | 186 | 6 | 101 | 473 | 64 | 486 | 1.01e-108 | 331 |
| Msa0480130 | AT4G11350.1 | 45.480 | 354 | 182 | 5 | 94 | 436 | 68 | 421 | 2.35e-108 | 331 |
| Msa0480130 | AT1G33250.1 | 45.954 | 346 | 183 | 2 | 98 | 439 | 114 | 459 | 2.87e-108 | 332 |
| Msa0480130 | AT1G01570.1 | 48.955 | 335 | 160 | 6 | 113 | 436 | 53 | 387 | 4.15e-108 | 329 |
| Msa0480130 | AT1G01570.2 | 48.955 | 335 | 160 | 6 | 113 | 436 | 84 | 418 | 1.72e-107 | 328 |
| Msa0480130 | AT1G07850.1 | 50.725 | 345 | 161 | 4 | 113 | 449 | 123 | 466 | 1.19e-106 | 327 |
Find 119 sgRNAs with CRISPR-Local
Find 468 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATGAATCAAGACCGGA+TGG | 0.570780 | 3_3:+85317798 | Msa0480130:CDS |
| AAAGCGTTTGTTACGATCAT+AGG | 0.351519 | 3_3:+85318899 | Msa0480130:CDS |
| AAAGCTTGCTGTAGTTGCTA+CGG | 0.585308 | 3_3:-85318101 | None:intergenic |
| AAATGATCCTGAGTCATCAT+TGG | 0.438728 | 3_3:-85316186 | None:intergenic |
| AAATGTTAGGTGGTTTGTAA+TGG | 0.483649 | 3_3:+85318308 | Msa0480130:CDS |
| AACACAGTAACTAAATTCTC+GGG | 0.445312 | 3_3:-85318354 | None:intergenic |
| AACATCTCACATATTGTATT+CGG | 0.400973 | 3_3:+85318048 | Msa0480130:CDS |
| AAGACAAGAATCCATAATAT+TGG | 0.372930 | 3_3:-85318514 | None:intergenic |
| AAGCGGTGCCAGAGGGTGCG+CGG | 0.577646 | 3_3:-85318761 | None:intergenic |
| AAGTTGCAGCATTGCCTACG+TGG | 0.657008 | 3_3:-85319708 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATTTACCTAATTCTGCAGA+TGG | + | chr3_3:85316294-85316313 | Msa0480130:exon | 30.0% | |
| AATATTCCATCTGCAGAATT+AGG | - | chr3_3:85316303-85316322 | None:intergenic | 30.0% | |
| TCATATTAAGATTGTTGCCA+AGG | + | chr3_3:85316611-85316630 | Msa0480130:intron | 30.0% | |
| TATAAATTCCAGCAAAAGCT+GGG | - | chr3_3:85316942-85316961 | None:intergenic | 30.0% | |
| ATATAAATTCCAGCAAAAGC+TGG | - | chr3_3:85316943-85316962 | None:intergenic | 30.0% | |
| AGAAAAAGATGAATCAAGAC+CGG | + | chr3_3:85317794-85317813 | Msa0480130:CDS | 30.0% | |
| GTTTCATTCTCAATAAGAGT+TGG | + | chr3_3:85317886-85317905 | Msa0480130:CDS | 30.0% | |
| TGTATAACATGTAAATGCTC+CGG | - | chr3_3:85317991-85318010 | None:intergenic | 30.0% | |
| ACAATATGTGAGATGTTTGT+AGG | - | chr3_3:85318045-85318064 | None:intergenic | 30.0% | |
| ATTACAAACCACCTAACATT+TGG | - | chr3_3:85318309-85318328 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 85316072 | 85320183 | 85316072 | ID=Msa0480130;Name=Msa0480130 |
| chr3_3 | mRNA | 85316072 | 85320183 | 85316072 | ID=Msa0480130-mRNA-1;Parent=Msa0480130;Name=Msa0480130-mRNA-1;_AED=0.08;_eAED=0.08;_QI=241|0.25|0.6|0.8|0.5|0.8|5|371|473 |
| chr3_3 | exon | 85316072 | 85316364 | 85316072 | ID=Msa0480130-mRNA-1:exon:24500;Parent=Msa0480130-mRNA-1 |
| chr3_3 | exon | 85317525 | 85317549 | 85317525 | ID=Msa0480130-mRNA-1:exon:24501;Parent=Msa0480130-mRNA-1 |
| chr3_3 | exon | 85317786 | 85318632 | 85317786 | ID=Msa0480130-mRNA-1:exon:24502;Parent=Msa0480130-mRNA-1 |
| chr3_3 | exon | 85318727 | 85319116 | 85318727 | ID=Msa0480130-mRNA-1:exon:24503;Parent=Msa0480130-mRNA-1 |
| chr3_3 | exon | 85319705 | 85320183 | 85319705 | ID=Msa0480130-mRNA-1:exon:24504;Parent=Msa0480130-mRNA-1 |
| chr3_3 | five_prime_UTR | 85316072 | 85316312 | 85316072 | ID=Msa0480130-mRNA-1:five_prime_utr;Parent=Msa0480130-mRNA-1 |
| chr3_3 | CDS | 85316313 | 85316364 | 85316313 | ID=Msa0480130-mRNA-1:cds;Parent=Msa0480130-mRNA-1 |
| chr3_3 | CDS | 85317525 | 85317549 | 85317525 | ID=Msa0480130-mRNA-1:cds;Parent=Msa0480130-mRNA-1 |
| chr3_3 | CDS | 85317786 | 85318632 | 85317786 | ID=Msa0480130-mRNA-1:cds;Parent=Msa0480130-mRNA-1 |
| chr3_3 | CDS | 85318727 | 85319116 | 85318727 | ID=Msa0480130-mRNA-1:cds;Parent=Msa0480130-mRNA-1 |
| chr3_3 | CDS | 85319705 | 85319812 | 85319705 | ID=Msa0480130-mRNA-1:cds;Parent=Msa0480130-mRNA-1 |
| chr3_3 | three_prime_UTR | 85319813 | 85320183 | 85319813 | ID=Msa0480130-mRNA-1:three_prime_utr;Parent=Msa0480130-mRNA-1 |
| Gene Sequence |
>Msa0480130 ATGGAATATTCTGATCATAGACCCTTTTTTTCTATTCTTAATCTTCATCAAGATCTTTTACAAAAGCACAATTTAAGGGTGAAGAAGAAAAAGATGAATCAAGACCGGATGGAATCTTGTCATGATCATCTTAAAATAACAAGATTACCTTATATACCAGAAAAAATAGGTGACTTGGTTTCATTCTCAATAAGAGTTGGCATAATTATCTGCCTTATAGCATCGATATCACTTGCTATCCATTCAACATTCGCTAAACCAGACCGATGGTTTCCATTACCGGAGCATTTACATGTTATACAGAATGTTTCAGTCATTGCCATTGATACAATACCTACAAACATCTCACATATTGTATTCGGCATCGCTGGTTCATCGAAAATGTGGCATAGCCGTAGCAACTACAGCAAGCTTTGGTGGAATCCAACTGCTTGCAGAGGTTTTGTCTGGTTCGACAAGAAACCAAAGAATTTGAAGCCGGACGATATGCTAATTCCATATAAAATCTCACAGGGATGGACTAAGTTCAGGTACTTGCACTCTGCATCTGCAGTTCGGATATCGCGGATAGTTTACGAAAGCTTTAGACTTGGTTTGCCAAATGTTAGGTGGTTTGTAATGGGAGATGATGATACGGTGTTTTTCCCCGAGAATTTAGTTACTGTGTTGGGAAAATATGATCACAATCAATTGTATTATGTTGGTGGGAATTCTGAGAGTGTGGAACAAGATGTTATGCATTCTTATGATATGGCTTTTGGTGGTGGTGGTATTGCAATCAGTTATGCATTAGCAGCTAGACTAGCCAATATTATGGATTCTTGTCTTCATAGATACTATTATTATTATGGTTCTGATCAAAGAGTTTGGGCCTGTGTAAACGAATTAGGAGTATCTCTTACCAGAGAAAGAGGATTCCATCAGCTTGACATTAGAGGGAATCCATATGGTCTTTTAGCCGCGCACCCTCTGGCACCGCTTGTGTCACTCCATCACCTTGATCAATTGCACCCGGTGTTTCCGGACCAAAGTCAAATGTCTTCATTAAAGAAACTCATCAGTGCATACGACCTTGACCCTGCAAGGATAGTGCAGCAAAGCGTTTGTTACGATCATAGGCGAAGATGGTCAATATCTATTTCTTGGGGCTACACAATACAAATCTATACATCGTTGTTGATAACAGCGGATTTGCAGATGCCATTGCAGACGTTTAAAACATGGCGAAGTTCGAGTGATGGTCCTTTCACGTTTAATACTCGATGGATGAACCCTGACGTATGCCAGCAGCCATCTATATTTTTCTTGGATCAGGTACCACGTAGGCAATGCTGCAACTTTATGGATGGAGGAAGCATAAAGGATGGAAGTGTGCATATCAGAATAAGGAAGTGCAGACCTCAAGAAACAATTACTATTTAG |
| Protein sequence |
>Msa0480130 MEYSDHRPFFSILNLHQDLLQKHNLRVKKKKMNQDRMESCHDHLKITRLPYIPEKIGDLVSFSIRVGIIICLIASISLAIHSTFAKPDRWFPLPEHLHVIQNVSVIAIDTIPTNISHIVFGIAGSSKMWHSRSNYSKLWWNPTACRGFVWFDKKPKNLKPDDMLIPYKISQGWTKFRYLHSASAVRISRIVYESFRLGLPNVRWFVMGDDDTVFFPENLVTVLGKYDHNQLYYVGGNSESVEQDVMHSYDMAFGGGGIAISYALAARLANIMDSCLHRYYYYYGSDQRVWACVNELGVSLTRERGFHQLDIRGNPYGLLAAHPLAPLVSLHHLDQLHPVFPDQSQMSSLKKLISAYDLDPARIVQQSVCYDHRRRWSISISWGYTIQIYTSLLITADLQMPLQTFKTWRSSSDGPFTFNTRWMNPDVCQQPSIFFLDQVPRRQCCNFMDGGSIKDGSVHIRIRKCRPQETITI* |
