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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1085230 | XP_013460147.1 | 96.104 | 154 | 6 | 0 | 1 | 154 | 1 | 154 | 3.31e-104 | 305 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1085230 | A0A072UYI1 | 96.104 | 154 | 6 | 0 | 1 | 154 | 1 | 154 | 1.58e-104 | 305 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0049770 | Msa1085230 | 0.802952 | 4.395223e-49 | -8.615850e-47 |
| Msa0716230 | Msa1085230 | -0.817718 | 2.852283e-52 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1085230 | MtrunA17_Chr3g0104001 | 96.104 | 154 | 6 | 0 | 1 | 154 | 1 | 154 | 3.04e-108 | 305 |
| Msa1085230 | MtrunA17_Chr5g0429501 | 45.399 | 163 | 71 | 5 | 4 | 154 | 4 | 160 | 3.33e-41 | 135 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1085230 | AT5G58920.1 | 49.693 | 163 | 72 | 3 | 1 | 154 | 1 | 162 | 1.02e-47 | 152 |
Find 56 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCTCTCAACAATCCCTTTA+AGG | 0.078565 | 7_2:+85700927 | None:intergenic |
| TTTGGGAAACATTGCAAAAT+AGG | 0.186387 | 7_2:+85701397 | None:intergenic |
| ATGATTGGAAACACCCTTAA+AGG | 0.235924 | 7_2:-85700941 | Msa1085230:CDS |
| AAACAATACATGAATAAAAT+TGG | 0.250625 | 7_2:-85701175 | Msa1085230:CDS |
| GCATAGAAAGGTACCTGTTT+TGG | 0.250900 | 7_2:+85701361 | None:intergenic |
| CAATCCCTTATCATCCCTTT+TGG | 0.281817 | 7_2:-85701471 | None:intergenic |
| AATCCACAAACCACCAAGTA+TGG | 0.349343 | 7_2:+85701090 | None:intergenic |
| CTTTGCACCTACACCATACT+TGG | 0.349413 | 7_2:-85701103 | Msa1085230:CDS |
| TACCTCACCAAGGTACAAAT+TGG | 0.359814 | 7_2:+85700997 | None:intergenic |
| TTTGGGGTCCTTAAAACGTT+TGG | 0.360316 | 7_2:+85701379 | None:intergenic |
| CAAACTTCTCCTTTATCGTT+GGG | 0.361051 | 7_2:+85701026 | None:intergenic |
| GAAGAAGTCCCCAACGATAA+AGG | 0.371297 | 7_2:-85701035 | Msa1085230:CDS |
| GTGGTTTGTGGATTTATAAC+GGG | 0.375517 | 7_2:-85701081 | Msa1085230:CDS |
| TTGGGGTCCTTAAAACGTTT+GGG | 0.382247 | 7_2:+85701380 | None:intergenic |
| GCAGAAGAAGAAGGCTGATC+AGG | 0.383599 | 7_2:-85700873 | Msa1085230:CDS |
| ACACCATACTTGGTGGTTTG+TGG | 0.386041 | 7_2:-85701093 | Msa1085230:CDS |
| CAAGACCAAAAGGGATGATA+AGG | 0.406489 | 7_2:+85701466 | None:intergenic |
| TGATTGGAAACACCCTTAAA+GGG | 0.429574 | 7_2:-85700940 | Msa1085230:CDS |
| TCAAACTTCTCCTTTATCGT+TGG | 0.437675 | 7_2:+85701025 | None:intergenic |
| ATAGCGAAAGGAAAGATGAT+TGG | 0.439856 | 7_2:-85700956 | Msa1085230:CDS |
| GCTCTCAACAATCCCTTTAA+GGG | 0.450480 | 7_2:+85700928 | None:intergenic |
| TGCGTGAGTTAGTTTAGAGA+GGG | 0.455982 | 7_2:+85701428 | None:intergenic |
| TAATATTGTTCAAGACCAAA+AGG | 0.460195 | 7_2:+85701456 | None:intergenic |
| ATGCGTGAGTTAGTTTAGAG+AGG | 0.460829 | 7_2:+85701427 | None:intergenic |
| TGTAGCCGAGCTTCGAGAAA+AGG | 0.470584 | 7_2:-85700813 | Msa1085230:CDS |
| GTACCTTGGTGAGGTAGATT+CGG | 0.473966 | 7_2:-85700990 | Msa1085230:CDS |
| TGCACCTACACCATACTTGG+TGG | 0.482083 | 7_2:-85701100 | Msa1085230:CDS |
| GATTGTTGAGAGCGATCATA+AGG | 0.497516 | 7_2:-85700918 | Msa1085230:CDS |
| ATACATGAATAAAATTGGAT+TGG | 0.498338 | 7_2:-85701170 | Msa1085230:CDS |
| GGTGGTTTGTGGATTTATAA+CGG | 0.500879 | 7_2:-85701082 | Msa1085230:CDS |
| GAGGAGGCCAATTTGTACCT+TGG | 0.500928 | 7_2:-85701004 | Msa1085230:CDS |
| GTTCGCCGATGGAGTGGTGG+AGG | 0.508718 | 7_2:-85701057 | Msa1085230:CDS |
| AACGATAAAGGAGAAGTTTG+AGG | 0.529363 | 7_2:-85701023 | Msa1085230:CDS |
| GTGAAGGAGTTTATAGCGAA+AGG | 0.530527 | 7_2:-85700968 | Msa1085230:CDS |
| GTAGCCGAGCTTCGAGAAAA+GGG | 0.543319 | 7_2:-85700812 | Msa1085230:CDS |
| TATGGTGTAGGTGCAAAGTA+AGG | 0.546250 | 7_2:+85701108 | None:intergenic |
| GGAGGAGATGCAGAAGAAGA+AGG | 0.546379 | 7_2:-85700882 | Msa1085230:CDS |
| GGGGTTCGCCGATGGAGTGG+TGG | 0.549647 | 7_2:-85701060 | Msa1085230:CDS |
| AATATTGTTCAAGACCAAAA+GGG | 0.550833 | 7_2:+85701457 | None:intergenic |
| TGGTTTGTGGATTTATAACG+GGG | 0.552365 | 7_2:-85701080 | Msa1085230:CDS |
| AAACTTCTCCTTTATCGTTG+GGG | 0.554129 | 7_2:+85701027 | None:intergenic |
| TCATAAGGATGCAAGTGGGC+GGG | 0.566998 | 7_2:-85700903 | Msa1085230:CDS |
| ATCAGGAAGCTCAGAAGATG+TGG | 0.578565 | 7_2:-85700856 | Msa1085230:CDS |
| TTCTTCCTCCACCACTCCAT+CGG | 0.579756 | 7_2:+85701052 | None:intergenic |
| ATCATAAGGATGCAAGTGGG+CGG | 0.607991 | 7_2:-85700904 | Msa1085230:CDS |
| TCGAGAAAAGGGAATTGATG+TGG | 0.609001 | 7_2:-85700801 | Msa1085230:CDS |
| AGCGATCATAAGGATGCAAG+TGG | 0.622952 | 7_2:-85700908 | Msa1085230:CDS |
| TAAGGATGCAAGTGGGCGGG+AGG | 0.627622 | 7_2:-85700900 | Msa1085230:CDS |
| GGCCAATTTGTACCTTGGTG+AGG | 0.629724 | 7_2:-85700999 | Msa1085230:CDS |
| GTGGTTGAAGATGAAGAATG+AGG | 0.641892 | 7_2:-85700837 | Msa1085230:CDS |
| TGGTGAGGTAGATTCGGTGA+AGG | 0.648767 | 7_2:-85700984 | Msa1085230:CDS |
| CAAACCACCAAGTATGGTGT+AGG | 0.650182 | 7_2:+85701096 | None:intergenic |
| GCGATCATAAGGATGCAAGT+GGG | 0.690954 | 7_2:-85700907 | Msa1085230:CDS |
| GATAAAGGAGAAGTTTGAGG+AGG | 0.709232 | 7_2:-85701020 | Msa1085230:CDS |
| TCACCGAATCTACCTCACCA+AGG | 0.731649 | 7_2:+85700987 | None:intergenic |
| GGTTTGTGGATTTATAACGG+GGG | 0.754582 | 7_2:-85701079 | Msa1085230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGCATTATAGAAAATATTA+GGG | + | chr7_2:85701004-85701023 | None:intergenic | 15.0% |
| !! | AATGCATTATAGAAAATATT+AGG | + | chr7_2:85701005-85701024 | None:intergenic | 15.0% |
| !! | AAACAATACATGAATAAAAT+TGG | - | chr7_2:85701084-85701103 | Msa1085230:CDS | 15.0% |
| !!! | TACTACTTTTATAAACAAAT+TGG | - | chr7_2:85701123-85701142 | Msa1085230:CDS | 15.0% |
| !! | ATACATGAATAAAATTGGAT+TGG | - | chr7_2:85701089-85701108 | Msa1085230:CDS | 20.0% |
| !!! | CTTTTATAAACAAATTGGAA+AGG | - | chr7_2:85701128-85701147 | Msa1085230:CDS | 20.0% |
| ! | AATATTGTTCAAGACCAAAA+GGG | + | chr7_2:85700805-85700824 | None:intergenic | 25.0% |
| ! | TAATATTGTTCAAGACCAAA+AGG | + | chr7_2:85700806-85700825 | None:intergenic | 25.0% |
| TTTGGGAAACATTGCAAAAT+AGG | + | chr7_2:85700865-85700884 | None:intergenic | 30.0% | |
| ! | AATGTTTCCCAAACGTTTTA+AGG | - | chr7_2:85700872-85700891 | Msa1085230:CDS | 30.0% |
| ! | GAGACATTTTATCAAACAGT+TGG | + | chr7_2:85700967-85700986 | None:intergenic | 30.0% |
| !!! | ATAGAAAGGTACCTGTTTTG+GGG | + | chr7_2:85700899-85700918 | None:intergenic | 35.0% |
| !!! | CATAGAAAGGTACCTGTTTT+GGG | + | chr7_2:85700900-85700919 | None:intergenic | 35.0% |
| TCGAATTATTGCGCATAGAA+AGG | + | chr7_2:85700913-85700932 | None:intergenic | 35.0% | |
| CTACTTATATATTCCACTGC+AGG | - | chr7_2:85701033-85701052 | Msa1085230:CDS | 35.0% | |
| ! | GGTGGTTTGTGGATTTATAA+CGG | - | chr7_2:85701177-85701196 | Msa1085230:CDS | 35.0% |
| ! | GTGGTTTGTGGATTTATAAC+GGG | - | chr7_2:85701178-85701197 | Msa1085230:CDS | 35.0% |
| ! | TGGTTTGTGGATTTATAACG+GGG | - | chr7_2:85701179-85701198 | Msa1085230:CDS | 35.0% |
| AAACTTCTCCTTTATCGTTG+GGG | + | chr7_2:85701235-85701254 | None:intergenic | 35.0% | |
| CAAACTTCTCCTTTATCGTT+GGG | + | chr7_2:85701236-85701255 | None:intergenic | 35.0% | |
| TCAAACTTCTCCTTTATCGT+TGG | + | chr7_2:85701237-85701256 | None:intergenic | 35.0% | |
| AACGATAAAGGAGAAGTTTG+AGG | - | chr7_2:85701236-85701255 | Msa1085230:intron | 35.0% | |
| ATAGCGAAAGGAAAGATGAT+TGG | - | chr7_2:85701303-85701322 | Msa1085230:intron | 35.0% | |
| ATGATTGGAAACACCCTTAA+AGG | - | chr7_2:85701318-85701337 | Msa1085230:intron | 35.0% | |
| TGATTGGAAACACCCTTAAA+GGG | - | chr7_2:85701319-85701338 | Msa1085230:intron | 35.0% | |
| ! | TGCGTGAGTTAGTTTAGAGA+GGG | + | chr7_2:85700834-85700853 | None:intergenic | 40.0% |
| ! | ATGCGTGAGTTAGTTTAGAG+AGG | + | chr7_2:85700835-85700854 | None:intergenic | 40.0% |
| TTGGGGTCCTTAAAACGTTT+GGG | + | chr7_2:85700882-85700901 | None:intergenic | 40.0% | |
| ! | TTTGGGGTCCTTAAAACGTT+TGG | + | chr7_2:85700883-85700902 | None:intergenic | 40.0% |
| !!! | GCATAGAAAGGTACCTGTTT+TGG | + | chr7_2:85700901-85700920 | None:intergenic | 40.0% |
| TATGGTGTAGGTGCAAAGTA+AGG | + | chr7_2:85701154-85701173 | None:intergenic | 40.0% | |
| AATCCACAAACCACCAAGTA+TGG | + | chr7_2:85701172-85701191 | None:intergenic | 40.0% | |
| GGTTTGTGGATTTATAACGG+GGG | - | chr7_2:85701180-85701199 | Msa1085230:CDS | 40.0% | |
| GATAAAGGAGAAGTTTGAGG+AGG | - | chr7_2:85701239-85701258 | Msa1085230:intron | 40.0% | |
| TACCTCACCAAGGTACAAAT+TGG | + | chr7_2:85701265-85701284 | None:intergenic | 40.0% | |
| GTGAAGGAGTTTATAGCGAA+AGG | - | chr7_2:85701291-85701310 | Msa1085230:intron | 40.0% | |
| GCTCTCAACAATCCCTTTAA+GGG | + | chr7_2:85701334-85701353 | None:intergenic | 40.0% | |
| GATTGTTGAGAGCGATCATA+AGG | - | chr7_2:85701341-85701360 | Msa1085230:intron | 40.0% | |
| GTGGTTGAAGATGAAGAATG+AGG | - | chr7_2:85701422-85701441 | Msa1085230:five_prime_UTR | 40.0% | |
| ! | AATTCCCTTTTCTCGAAGCT+CGG | + | chr7_2:85701454-85701473 | None:intergenic | 40.0% |
| TCGAGAAAAGGGAATTGATG+TGG | - | chr7_2:85701458-85701477 | Msa1085230:five_prime_UTR | 40.0% | |
| !!! | CGTTTTAAGGACCCCAAAAC+AGG | - | chr7_2:85700885-85700904 | Msa1085230:CDS | 45.0% |
| CAGCATATGAAAACCTGCAG+TGG | + | chr7_2:85701049-85701068 | None:intergenic | 45.0% | |
| CTTTGCACCTACACCATACT+TGG | - | chr7_2:85701156-85701175 | Msa1085230:CDS | 45.0% | |
| CAAACCACCAAGTATGGTGT+AGG | + | chr7_2:85701166-85701185 | None:intergenic | 45.0% | |
| ! | ACACCATACTTGGTGGTTTG+TGG | - | chr7_2:85701166-85701185 | Msa1085230:CDS | 45.0% |
| GAAGAAGTCCCCAACGATAA+AGG | - | chr7_2:85701224-85701243 | Msa1085230:intron | 45.0% | |
| GTACCTTGGTGAGGTAGATT+CGG | - | chr7_2:85701269-85701288 | Msa1085230:intron | 45.0% | |
| CGCTCTCAACAATCCCTTTA+AGG | + | chr7_2:85701335-85701354 | None:intergenic | 45.0% | |
| AGCGATCATAAGGATGCAAG+TGG | - | chr7_2:85701351-85701370 | Msa1085230:intron | 45.0% | |
| GCGATCATAAGGATGCAAGT+GGG | - | chr7_2:85701352-85701371 | Msa1085230:intron | 45.0% | |
| ATCATAAGGATGCAAGTGGG+CGG | - | chr7_2:85701355-85701374 | Msa1085230:intron | 45.0% | |
| ATCAGGAAGCTCAGAAGATG+TGG | - | chr7_2:85701403-85701422 | Msa1085230:exon | 45.0% | |
| TGCACCTACACCATACTTGG+TGG | - | chr7_2:85701159-85701178 | Msa1085230:CDS | 50.0% | |
| TTCTTCCTCCACCACTCCAT+CGG | + | chr7_2:85701210-85701229 | None:intergenic | 50.0% | |
| GAGGAGGCCAATTTGTACCT+TGG | - | chr7_2:85701255-85701274 | Msa1085230:intron | 50.0% | |
| GGCCAATTTGTACCTTGGTG+AGG | - | chr7_2:85701260-85701279 | Msa1085230:intron | 50.0% | |
| TCACCGAATCTACCTCACCA+AGG | + | chr7_2:85701275-85701294 | None:intergenic | 50.0% | |
| !! | TGGTGAGGTAGATTCGGTGA+AGG | - | chr7_2:85701275-85701294 | Msa1085230:intron | 50.0% |
| TCATAAGGATGCAAGTGGGC+GGG | - | chr7_2:85701356-85701375 | Msa1085230:intron | 50.0% | |
| GGAGGAGATGCAGAAGAAGA+AGG | - | chr7_2:85701377-85701396 | Msa1085230:CDS | 50.0% | |
| GCAGAAGAAGAAGGCTGATC+AGG | - | chr7_2:85701386-85701405 | Msa1085230:CDS | 50.0% | |
| TGTAGCCGAGCTTCGAGAAA+AGG | - | chr7_2:85701446-85701465 | Msa1085230:five_prime_UTR | 50.0% | |
| GTAGCCGAGCTTCGAGAAAA+GGG | - | chr7_2:85701447-85701466 | Msa1085230:five_prime_UTR | 50.0% | |
| ! | TTATAACGGGGGTTCGCCGA+TGG | - | chr7_2:85701191-85701210 | Msa1085230:CDS | 55.0% |
| TAAGGATGCAAGTGGGCGGG+AGG | - | chr7_2:85701359-85701378 | Msa1085230:intron | 60.0% | |
| GTTCGCCGATGGAGTGGTGG+AGG | - | chr7_2:85701202-85701221 | Msa1085230:CDS | 65.0% | |
| ACGGGGGTTCGCCGATGGAG+TGG | - | chr7_2:85701196-85701215 | Msa1085230:CDS | 70.0% | |
| GGGGTTCGCCGATGGAGTGG+TGG | - | chr7_2:85701199-85701218 | Msa1085230:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 85700796 | 85701485 | 85700796 | ID=Msa1085230;Name=Msa1085230 |
| chr7_2 | mRNA | 85700796 | 85701485 | 85700796 | ID=Msa1085230-mRNA-1;Parent=Msa1085230;Name=Msa1085230-mRNA-1;_AED=0.01;_eAED=0.01;_QI=77|1|0.5|1|1|1|2|0|154 |
| chr7_2 | exon | 85700796 | 85701226 | 85700796 | ID=Msa1085230-mRNA-1:exon:23194;Parent=Msa1085230-mRNA-1 |
| chr7_2 | exon | 85701375 | 85701485 | 85701375 | ID=Msa1085230-mRNA-1:exon:23193;Parent=Msa1085230-mRNA-1 |
| chr7_2 | five_prime_UTR | 85701409 | 85701485 | 85701409 | ID=Msa1085230-mRNA-1:five_prime_utr;Parent=Msa1085230-mRNA-1 |
| chr7_2 | CDS | 85701375 | 85701408 | 85701375 | ID=Msa1085230-mRNA-1:cds;Parent=Msa1085230-mRNA-1 |
| chr7_2 | CDS | 85700796 | 85701226 | 85700796 | ID=Msa1085230-mRNA-1:cds;Parent=Msa1085230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
