Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20143.t1 | XP_003625515.1 | 99.3 | 143 | 1 | 0 | 1 | 143 | 1 | 143 | 6.50E-74 | 286.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20143.t1 | O82201 | 90.8 | 141 | 13 | 0 | 1 | 141 | 1 | 141 | 2.8e-70 | 265.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20143.t1 | G7L0L8 | 99.3 | 143 | 1 | 0 | 1 | 143 | 1 | 143 | 4.7e-74 | 286.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene20143 | MS.gene27073 | PPI |
| MS.gene20143 | MS.gene017498 | PPI |
| MS.gene20143 | MS.gene64216 | PPI |
| MS.gene20143 | MS.gene64013 | PPI |
| MS.gene20143 | MS.gene021005 | PPI |
| MS.gene20143 | MS.gene75781 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20143.t1 | MTR_7g100010 | 99.301 | 143 | 1 | 0 | 1 | 143 | 1 | 143 | 4.64e-104 | 293 |
| MS.gene20143.t1 | MTR_8g102180 | 99.301 | 143 | 1 | 0 | 1 | 143 | 1 | 143 | 4.64e-104 | 293 |
| MS.gene20143.t1 | MTR_5g098940 | 42.029 | 138 | 80 | 0 | 3 | 140 | 2 | 139 | 9.50e-39 | 129 |
| MS.gene20143.t1 | MTR_1g025190 | 47.482 | 139 | 73 | 0 | 3 | 141 | 2 | 140 | 1.17e-38 | 128 |
| MS.gene20143.t1 | MTR_5g087820 | 41.791 | 134 | 78 | 0 | 3 | 136 | 26 | 159 | 8.53e-35 | 119 |
| MS.gene20143.t1 | MTR_8g077600 | 37.162 | 148 | 80 | 3 | 3 | 141 | 2 | 145 | 1.15e-30 | 108 |
| MS.gene20143.t1 | MTR_8g077600 | 35.484 | 93 | 47 | 3 | 3 | 86 | 2 | 90 | 1.40e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20143.t1 | AT2G19790 | 90.141 | 142 | 14 | 0 | 1 | 142 | 1 | 142 | 2.48e-96 | 274 |
| MS.gene20143.t1 | AT1G47830 | 48.201 | 139 | 72 | 0 | 3 | 141 | 2 | 140 | 2.48e-39 | 129 |
| MS.gene20143.t1 | AT2G17380 | 41.727 | 139 | 81 | 0 | 3 | 141 | 2 | 140 | 1.62e-38 | 128 |
| MS.gene20143.t1 | AT4G35410 | 41.727 | 139 | 81 | 0 | 3 | 141 | 2 | 140 | 3.23e-37 | 125 |
| MS.gene20143.t1 | AT3G50860 | 39.583 | 144 | 82 | 1 | 3 | 141 | 2 | 145 | 5.28e-35 | 119 |
| MS.gene20143.t1 | AT3G50860 | 39.583 | 144 | 82 | 1 | 3 | 141 | 2 | 145 | 5.57e-35 | 119 |
| MS.gene20143.t1 | AT4G35410 | 45.361 | 97 | 53 | 0 | 3 | 99 | 2 | 98 | 2.05e-25 | 93.2 |
Find 23 sgRNAs with CRISPR-Local
Find 101 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAGAATGAGCTTGCTATTT+TGG | 0.125124 | 4.4:-3648918 | MS.gene20143:intron |
| GAAACCATGGATCGACATTT+TGG | 0.210891 | 4.4:-3648875 | MS.gene20143:CDS |
| GGGGATCCGATTCGTGTTAA+TGG | 0.262612 | 4.4:-3650332 | MS.gene20143:CDS |
| TACGAACAATTTCGCCTTCA+AGG | 0.397557 | 4.4:+3650242 | None:intergenic |
| GCAACTACAAAATTATATAT+AGG | 0.415613 | 4.4:-3649308 | MS.gene20143:CDS |
| GAAGAACGACGAACCCTTGA+AGG | 0.434936 | 4.4:-3650256 | MS.gene20143:CDS |
| TGTTCACCATTAACACGAAT+CGG | 0.437301 | 4.4:+3650326 | None:intergenic |
| TATCATGTTTCATTTAGAAA+AGG | 0.473226 | 4.4:-3648654 | MS.gene20143:CDS |
| TTCATAATACTGAGCAAGAC+GGG | 0.525077 | 4.4:+3650291 | None:intergenic |
| TCTGACTCCTATTCAGCTGA+TGG | 0.529053 | 4.4:-3648567 | MS.gene20143:CDS |
| ACGAACAATTTCGCCTTCAA+GGG | 0.529281 | 4.4:+3650243 | None:intergenic |
| TTCCTGGTTGGAGTTGATGA+CGG | 0.536130 | 4.4:-3649267 | MS.gene20143:CDS |
| CGCCGTCATCAACTCCAACC+AGG | 0.570939 | 4.4:+3649265 | None:intergenic |
| CCATGGTTTCGACTAAGAGA+TGG | 0.572456 | 4.4:+3648888 | None:intergenic |
| GGTCATGAATGGTTGTATTG+TGG | 0.573456 | 4.4:-3648609 | MS.gene20143:CDS |
| CCTCGCCCGTAATGAAAACC+AGG | 0.578527 | 4.4:-3650215 | MS.gene20143:intron |
| GTTGCCAAAATGTCGATCCA+TGG | 0.581731 | 4.4:+3648871 | None:intergenic |
| GTGTTAATGGTGAACAAACA+AGG | 0.589164 | 4.4:-3650319 | MS.gene20143:CDS |
| TTGGAGGAAATGGTCATGAA+TGG | 0.600198 | 4.4:-3648620 | MS.gene20143:CDS |
| CCATCTCTTAGTCGAAACCA+TGG | 0.604583 | 4.4:-3648888 | MS.gene20143:CDS |
| ATTCATAATACTGAGCAAGA+CGG | 0.623435 | 4.4:+3650290 | None:intergenic |
| TTCGTCGTTCTTCAACAGTG+AGG | 0.697820 | 4.4:+3650266 | None:intergenic |
| GGTTGGAGTTGATGACGGCG+AGG | 0.701215 | 4.4:-3649262 | MS.gene20143:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAATAAAATCAATTTGTTT+TGG | + | chr4.4:3648996-3649015 | None:intergenic | 10.0% |
| !! | ATGAAAATAAAAGAAAAGAA+TGG | + | chr4.4:3648705-3648724 | None:intergenic | 15.0% |
| !! | ATATTTATCTTCAATGAAAG+TGG | + | chr4.4:3649890-3649909 | None:intergenic | 20.0% |
| !! | ATTTAAACATGTGATGAAAT+TGG | + | chr4.4:3649271-3649290 | None:intergenic | 20.0% |
| !! | GCAACTACAAAATTATATAT+AGG | - | chr4.4:3649579-3649598 | MS.gene20143:intron | 20.0% |
| !! | TATCATGTTTCATTTAGAAA+AGG | - | chr4.4:3650233-3650252 | MS.gene20143:CDS | 20.0% |
| !! | TGAAATTGGAAAGAAAAAAA+AGG | + | chr4.4:3649257-3649276 | None:intergenic | 20.0% |
| !!! | ATTCTAGTTGATTTATACAA+AGG | - | chr4.4:3649672-3649691 | MS.gene20143:intron | 20.0% |
| !!! | TGAATATTTTTACTATAGAC+AGG | - | chr4.4:3649133-3649152 | MS.gene20143:intron | 20.0% |
| ! | AAACAATGACAATGTGAATT+AGG | + | chr4.4:3648760-3648779 | None:intergenic | 25.0% |
| ! | AGAAACAAAAAATCAGTGTT+TGG | + | chr4.4:3650171-3650190 | None:intergenic | 25.0% |
| ! | ATTAGGTAAAATTGAAGGTA+AGG | + | chr4.4:3648743-3648762 | None:intergenic | 25.0% |
| ! | GGAAGAAAACAATAGAATTA+TGG | + | chr4.4:3650123-3650142 | None:intergenic | 25.0% |
| ! | TAAATAAGACATAGATGTCT+TGG | - | chr4.4:3649098-3649117 | MS.gene20143:intron | 25.0% |
| ! | TAGATTATATAATCTGTGAG+TGG | - | chr4.4:3649316-3649335 | MS.gene20143:CDS | 25.0% |
| ! | TGTGAATTAGGTAAAATTGA+AGG | + | chr4.4:3648748-3648767 | None:intergenic | 25.0% |
| ! | TGTTTATTATTATTCAACCC+TGG | - | chr4.4:3648775-3648794 | MS.gene20143:intron | 25.0% |
| ! | TTGAATAATAAAGAATGACG+AGG | + | chr4.4:3649359-3649378 | None:intergenic | 25.0% |
| !!! | AGAAAAGGTACATTTTATGT+TGG | - | chr4.4:3650248-3650267 | MS.gene20143:CDS | 25.0% |
| !!! | CACTGTGTTATATTTTAGTT+GGG | - | chr4.4:3649229-3649248 | MS.gene20143:intron | 25.0% |
| AGAATTATGGAAGTAATGTG+AGG | + | chr4.4:3650110-3650129 | None:intergenic | 30.0% | |
| AGTAAGAGAAAGTCAAAAGA+TGG | + | chr4.4:3649434-3649453 | None:intergenic | 30.0% | |
| ATTCATAATACTGAGCAAGA+CGG | + | chr4.4:3648600-3648619 | None:intergenic | 30.0% | |
| ATTCTTTATTATTCAACCCG+AGG | - | chr4.4:3649363-3649382 | MS.gene20143:intron | 30.0% | |
| CCAACTAAAATATAACACAG+TGG | + | chr4.4:3649231-3649250 | None:intergenic | 30.0% | |
| GCATATTGTGTTAAATAGTC+TGG | - | chr4.4:3649715-3649734 | MS.gene20143:intron | 30.0% | |
| GGTTTATACCAGAAACATAA+GGG | - | chr4.4:3649468-3649487 | MS.gene20143:intron | 30.0% | |
| TATAGACAGGAGATAATTGT+TGG | - | chr4.4:3649146-3649165 | MS.gene20143:intron | 30.0% | |
| TGAGTGGAATGAAATTGAAA+TGG | - | chr4.4:3649332-3649351 | MS.gene20143:intron | 30.0% | |
| TGGTTTATACCAGAAACATA+AGG | - | chr4.4:3649467-3649486 | MS.gene20143:intron | 30.0% | |
| TTAACAAGACTAAGAACTTC+AGG | + | chr4.4:3649836-3649855 | None:intergenic | 30.0% | |
| TTATTATTATTCAACCCTGG+AGG | - | chr4.4:3648778-3648797 | MS.gene20143:intron | 30.0% | |
| TTTCATAATCTATCATGGAG+AGG | + | chr4.4:3648950-3648969 | None:intergenic | 30.0% | |
| ! | ACATTTTATGTTGGAGGAAA+TGG | - | chr4.4:3650257-3650276 | MS.gene20143:CDS | 30.0% |
| ! | CATAAACACTTCTGAGAATA+TGG | - | chr4.4:3648876-3648895 | MS.gene20143:CDS | 30.0% |
| ! | CTAGTTGATTTATACAAAGG+CGG | - | chr4.4:3649675-3649694 | MS.gene20143:intron | 30.0% |
| ! | GCTGATTTCATAATCTATCA+TGG | + | chr4.4:3648955-3648974 | None:intergenic | 30.0% |
| !! | AAAGGTACATTTTATGTTGG+AGG | - | chr4.4:3650251-3650270 | MS.gene20143:CDS | 30.0% |
| !! | AACATACCTGGTTTTCATTA+CGG | + | chr4.4:3648681-3648700 | None:intergenic | 30.0% |
| !!! | CCACTGTGTTATATTTTAGT+TGG | - | chr4.4:3649228-3649247 | MS.gene20143:intron | 30.0% |
| AAGTCAATCCCTTATGTTTC+TGG | + | chr4.4:3649479-3649498 | None:intergenic | 35.0% | |
| AATCTATCATGGAGAGGTTA+TGG | + | chr4.4:3648944-3648963 | None:intergenic | 35.0% | |
| AGCAAACTTGAATCCAAAGA+TGG | + | chr4.4:3649396-3649415 | None:intergenic | 35.0% | |
| AGGTAAAATTGAAGGTAAGG+AGG | + | chr4.4:3648740-3648759 | None:intergenic | 35.0% | |
| GAAAAGAATGGAAACATACC+TGG | + | chr4.4:3648693-3648712 | None:intergenic | 35.0% | |
| GTGTTAATGGTGAACAAACA+AGG | - | chr4.4:3648568-3648587 | MS.gene20143:CDS | 35.0% | |
| TCTTACTCATATTGATGCGT+TGG | - | chr4.4:3649447-3649466 | MS.gene20143:intron | 35.0% | |
| TCTTCAATGAAAGTGGTACA+TGG | + | chr4.4:3649883-3649902 | None:intergenic | 35.0% | |
| TGTTCACCATTAACACGAAT+CGG | + | chr4.4:3648564-3648583 | None:intergenic | 35.0% | |
| TTCATAATACTGAGCAAGAC+GGG | + | chr4.4:3648599-3648618 | None:intergenic | 35.0% | |
| TTGAAGCTAAGTTCAGAAGA+TGG | + | chr4.4:3650148-3650167 | None:intergenic | 35.0% | |
| ! | ATTATTCAACCCGAGGTTTT+AGG | - | chr4.4:3649370-3649389 | MS.gene20143:intron | 35.0% |
| ! | GTTTTATCCATCAGCTGAAT+AGG | + | chr4.4:3650330-3650349 | None:intergenic | 35.0% |
| ! | TGGCTGATACATTTTTGTCA+TGG | - | chr4.4:3649533-3649552 | MS.gene20143:intron | 35.0% |
| !! | ACATACCTGGTTTTCATTAC+GGG | + | chr4.4:3648680-3648699 | None:intergenic | 35.0% |
| !!! | CTATGCATCTTTGTTTTTCC+TGG | - | chr4.4:3649604-3649623 | MS.gene20143:intron | 35.0% |
| AAAAGATGGCCTAAAACCTC+GGG | + | chr4.4:3649420-3649439 | None:intergenic | 40.0% | |
| ACGAACAATTTCGCCTTCAA+GGG | + | chr4.4:3648647-3648666 | None:intergenic | 40.0% | |
| ACTTTCTCTTCCCCAATTCT+GGG | + | chr4.4:3649184-3649203 | None:intergenic | 40.0% | |
| AGCTAAGTTCAGAAGATGGA+AGG | + | chr4.4:3650144-3650163 | None:intergenic | 40.0% | |
| AGTGGTCATCACTATGTGAT+CGG | - | chr4.4:3649755-3649774 | MS.gene20143:intron | 40.0% | |
| CAAAAGATGGCCTAAAACCT+CGG | + | chr4.4:3649421-3649440 | None:intergenic | 40.0% | |
| CAATCTAATTGCTACCTCCA+GGG | + | chr4.4:3648795-3648814 | None:intergenic | 40.0% | |
| CCAGTTTCTTTAGACAAGCA+AGG | + | chr4.4:3649786-3649805 | None:intergenic | 40.0% | |
| CCTTGCTTGTCTAAAGAAAC+TGG | - | chr4.4:3649783-3649802 | MS.gene20143:intron | 40.0% | |
| GGTCATGAATGGTTGTATTG+TGG | - | chr4.4:3650278-3650297 | MS.gene20143:CDS | 40.0% | |
| TACGAACAATTTCGCCTTCA+AGG | + | chr4.4:3648648-3648667 | None:intergenic | 40.0% | |
| TACTTTCTCTTCCCCAATTC+TGG | + | chr4.4:3649185-3649204 | None:intergenic | 40.0% | |
| TCAATCTAATTGCTACCTCC+AGG | + | chr4.4:3648796-3648815 | None:intergenic | 40.0% | |
| TCTGCAAAATTGTCGACAGA+AGG | + | chr4.4:3649954-3649973 | None:intergenic | 40.0% | |
| TGTATCAGCCAGATGAATCA+TGG | + | chr4.4:3649524-3649543 | None:intergenic | 40.0% | |
| TTCCTTTCACACCCAGAATT+GGG | - | chr4.4:3649170-3649189 | MS.gene20143:intron | 40.0% | |
| TTGGAGGAAATGGTCATGAA+TGG | - | chr4.4:3650267-3650286 | MS.gene20143:CDS | 40.0% | |
| TTTCCTTTCACACCCAGAAT+TGG | - | chr4.4:3649169-3649188 | MS.gene20143:intron | 40.0% | |
| ! | GAAACCATGGATCGACATTT+TGG | - | chr4.4:3650012-3650031 | MS.gene20143:intron | 40.0% |
| !!! | GCAGAATGAGCTTGCTATTT+TGG | - | chr4.4:3649969-3649988 | MS.gene20143:intron | 40.0% |
| !!! | GCATCTTTGTTTTTCCTGGT+TGG | - | chr4.4:3649608-3649627 | MS.gene20143:intron | 40.0% |
| CAAAGATGGCCTAAAACCTC+GGG | + | chr4.4:3649382-3649401 | None:intergenic | 45.0% | |
| CCAAAGATGGCCTAAAACCT+CGG | + | chr4.4:3649383-3649402 | None:intergenic | 45.0% | |
| CCATCTCTTAGTCGAAACCA+TGG | - | chr4.4:3649999-3650018 | MS.gene20143:intron | 45.0% | |
| CCATGGTTTCGACTAAGAGA+TGG | + | chr4.4:3650002-3650021 | None:intergenic | 45.0% | |
| GATCACATAGTGATGACCAC+TGG | + | chr4.4:3649756-3649775 | None:intergenic | 45.0% | |
| GCTTTGATCTTACTGACCAG+TGG | - | chr4.4:3649737-3649756 | MS.gene20143:intron | 45.0% | |
| GTTGCCAAAATGTCGATCCA+TGG | + | chr4.4:3650019-3650038 | None:intergenic | 45.0% | |
| TCCTTTCACACCCAGAATTG+GGG | - | chr4.4:3649171-3649190 | MS.gene20143:intron | 45.0% | |
| TCTGACTCCTATTCAGCTGA+TGG | - | chr4.4:3650320-3650339 | MS.gene20143:CDS | 45.0% | |
| TCTGCTCACCATGATTCATC+TGG | - | chr4.4:3649513-3649532 | MS.gene20143:intron | 45.0% | |
| TTCGTCGTTCTTCAACAGTG+AGG | + | chr4.4:3648624-3648643 | None:intergenic | 45.0% | |
| !! | TTCCTGGTTGGAGTTGATGA+CGG | - | chr4.4:3649620-3649639 | MS.gene20143:intron | 45.0% |
| !!! | AGTTTGCTACCCGAGGTTTT+AGG | - | chr4.4:3649408-3649427 | MS.gene20143:intron | 45.0% |
| ACAGAGACTCTAGTCACAGC+AGG | + | chr4.4:3650051-3650070 | None:intergenic | 50.0% | |
| GAAGAACGACGAACCCTTGA+AGG | - | chr4.4:3648631-3648650 | MS.gene20143:CDS | 50.0% | |
| TCCCCAATTCTGGGTGTGAA+AGG | + | chr4.4:3649175-3649194 | None:intergenic | 50.0% | |
| ! | GGGGATCCGATTCGTGTTAA+TGG | - | chr4.4:3648555-3648574 | MS.gene20143:CDS | 50.0% |
| !! | GGATCGACATTTTGGCAACG+TGG | - | chr4.4:3650020-3650039 | MS.gene20143:intron | 50.0% |
| !! | GGATTCAAGTTTGCTACCCG+AGG | - | chr4.4:3649401-3649420 | MS.gene20143:intron | 50.0% |
| !!! | CCGAGGTTTTAGGCCATCTT+TGG | - | chr4.4:3649380-3649399 | MS.gene20143:intron | 50.0% |
| CCTCGCCCGTAATGAAAACC+AGG | - | chr4.4:3648672-3648691 | MS.gene20143:intron | 55.0% | |
| !! | CCTGGTTTTCATTACGGGCG+AGG | + | chr4.4:3648675-3648694 | None:intergenic | 55.0% |
| CGCCGTCATCAACTCCAACC+AGG | + | chr4.4:3649625-3649644 | None:intergenic | 60.0% | |
| !! | GGTTGGAGTTGATGACGGCG+AGG | - | chr4.4:3649625-3649644 | MS.gene20143:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 3648553 | 3650356 | 3648553 | ID=MS.gene20143 |
| chr4.4 | mRNA | 3648553 | 3650356 | 3648553 | ID=MS.gene20143.t1;Parent=MS.gene20143 |
| chr4.4 | exon | 3650216 | 3650356 | 3650216 | ID=MS.gene20143.t1.exon1;Parent=MS.gene20143.t1 |
| chr4.4 | CDS | 3650216 | 3650356 | 3650216 | ID=cds.MS.gene20143.t1;Parent=MS.gene20143.t1 |
| chr4.4 | exon | 3649263 | 3649349 | 3649263 | ID=MS.gene20143.t1.exon2;Parent=MS.gene20143.t1 |
| chr4.4 | CDS | 3649263 | 3649349 | 3649263 | ID=cds.MS.gene20143.t1;Parent=MS.gene20143.t1 |
| chr4.4 | exon | 3648868 | 3648936 | 3648868 | ID=MS.gene20143.t1.exon3;Parent=MS.gene20143.t1 |
| chr4.4 | CDS | 3648868 | 3648936 | 3648868 | ID=cds.MS.gene20143.t1;Parent=MS.gene20143.t1 |
| chr4.4 | exon | 3648553 | 3648687 | 3648553 | ID=MS.gene20143.t1.exon4;Parent=MS.gene20143.t1 |
| chr4.4 | CDS | 3648553 | 3648687 | 3648553 | ID=cds.MS.gene20143.t1;Parent=MS.gene20143.t1 |
| Gene Sequence |
| Protein sequence |
