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.gene28308.t1 | XP_003606841.1 | 78.3 | 198 | 43 | 0 | 1 | 198 | 1 | 198 | 3.10E-74 | 288.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28308.t1 | Q9FJG2 | 31.1 | 106 | 72 | 1 | 4 | 108 | 13 | 118 | 7.8e-10 | 65.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28308.t1 | G7JEY0 | 78.3 | 198 | 43 | 0 | 1 | 198 | 1 | 198 | 2.2e-74 | 288.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene28308.t1 | TF | B3 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene056413 | MS.gene28308 | 0.841272 | 5.25E-58 | -1.69E-46 |
| MS.gene056615 | MS.gene28308 | 0.933873 | 9.65E-96 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28308.t1 | MTR_4g068310 | 89.899 | 198 | 20 | 0 | 1 | 198 | 1 | 198 | 2.15e-128 | 359 |
| MS.gene28308.t1 | MTR_4g068300 | 57.789 | 199 | 63 | 6 | 1 | 180 | 1 | 197 | 4.22e-62 | 194 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28308.t1 | AT5G18090 | 28.671 | 143 | 97 | 4 | 4 | 144 | 11 | 150 | 9.87e-13 | 65.9 |
| MS.gene28308.t1 | AT5G18000 | 31.132 | 106 | 72 | 1 | 4 | 108 | 13 | 118 | 2.11e-12 | 64.7 |
| MS.gene28308.t1 | AT3G17010 | 28.402 | 169 | 108 | 5 | 4 | 164 | 14 | 177 | 1.92e-11 | 62.0 |
Find 41 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTTTCTCTTGGCCACAAT+TGG | 0.131130 | 4.4:+38955872 | None:intergenic |
| ATGTTCAAGGTGGAAATTTA+TGG | 0.176554 | 4.4:-38955950 | MS.gene28308:CDS |
| ACCGAAGATTGTTATGGATT+TGG | 0.260147 | 4.4:-38956155 | MS.gene28308:CDS |
| GAAGAAAGCATCAATTATTC+TGG | 0.262336 | 4.4:-38956119 | MS.gene28308:CDS |
| TGGATTTGGGTGAAGAGTTT+TGG | 0.266007 | 4.4:-38956141 | MS.gene28308:CDS |
| TTCTTTGATGATAGCGAAAA+AGG | 0.271206 | 4.4:+38956682 | None:intergenic |
| CCGAAGATTGTTATGGATTT+GGG | 0.289825 | 4.4:-38956154 | MS.gene28308:CDS |
| AGTGGGACTTGAAGAGTTCT+TGG | 0.304248 | 4.4:-38955996 | MS.gene28308:CDS |
| TTTCCAACGCATACTCTCTT+TGG | 0.308501 | 4.4:+38955752 | None:intergenic |
| CCCTTCTTTGTCACAATTGT+TGG | 0.332631 | 4.4:+38955710 | None:intergenic |
| TCTTTCTCTTGGCCACAATT+GGG | 0.346000 | 4.4:+38955873 | None:intergenic |
| GTGGAAATTTATGGTAAGAA+TGG | 0.371009 | 4.4:-38955941 | MS.gene28308:CDS |
| TTTGTCTTAGCCACAATTGT+TGG | 0.398096 | 4.4:+38955794 | None:intergenic |
| TGGTCTACCCCTCTTTCTCT+TGG | 0.402146 | 4.4:+38955862 | None:intergenic |
| AGTACCACCGAAGATTGTTA+TGG | 0.409721 | 4.4:-38956161 | MS.gene28308:CDS |
| TGGAAATTTATGGTAAGAAT+GGG | 0.420098 | 4.4:-38955940 | MS.gene28308:CDS |
| CTTTCTCTTGGCCACAATTG+GGG | 0.448018 | 4.4:+38955874 | None:intergenic |
| CCCAAATCCATAACAATCTT+CGG | 0.452160 | 4.4:+38956154 | None:intergenic |
| GACATTTATCTGCGAAACAT+TGG | 0.475455 | 4.4:-38956046 | MS.gene28308:CDS |
| ACCAACAATTGTGACAAAGA+AGG | 0.484661 | 4.4:-38955711 | MS.gene28308:CDS |
| TCTACTAAAATAACAGAAAG+AGG | 0.490912 | 4.4:+38955665 | None:intergenic |
| CAATTGTGGCCAAGAGAAAG+AGG | 0.520539 | 4.4:-38955871 | MS.gene28308:CDS |
| CCAACAATTGTGACAAAGAA+GGG | 0.536191 | 4.4:-38955710 | MS.gene28308:CDS |
| TATTGGAGATAACATGTTCA+AGG | 0.538893 | 4.4:-38955963 | MS.gene28308:CDS |
| AAAATAACAGAAAGAGGAGC+AGG | 0.548640 | 4.4:+38955671 | None:intergenic |
| TTTATCTGCGAAACATTGGT+TGG | 0.556011 | 4.4:-38956042 | MS.gene28308:CDS |
| AGTTGTTGCAGCCCCAATTG+TGG | 0.571592 | 4.4:-38955885 | MS.gene28308:CDS |
| AATTGTGGCTAAGACAAAGA+TGG | 0.585870 | 4.4:-38955789 | MS.gene28308:CDS |
| AGAAGCTGCACCAACAATTG+TGG | 0.589864 | 4.4:-38955804 | MS.gene28308:CDS |
| CAAATGAATTACCATGCACT+TGG | 0.596053 | 4.4:+38956649 | None:intergenic |
| TATGCTCTTCGAGTGAGAAG+TGG | 0.604662 | 4.4:-38956096 | MS.gene28308:CDS |
| AGGCTTCAACACCAAGTGCA+TGG | 0.605306 | 4.4:-38956660 | MS.gene28308:intron |
| ATGCTCTTCGAGTGAGAAGT+GGG | 0.605893 | 4.4:-38956095 | MS.gene28308:CDS |
| TTTCTGAAAGACAACTCAGT+GGG | 0.610997 | 4.4:-38956013 | MS.gene28308:CDS |
| AATCCAAAGAGAGTATGCGT+TGG | 0.611249 | 4.4:-38955755 | MS.gene28308:CDS |
| AATTGTGGCCAAGAGAAAGA+GGG | 0.618437 | 4.4:-38955870 | MS.gene28308:CDS |
| TGGAGATAACATGTTCAAGG+TGG | 0.674338 | 4.4:-38955960 | MS.gene28308:CDS |
| CGTTGGAAAACAAAACGCAG+AGG | 0.680803 | 4.4:-38955738 | MS.gene28308:CDS |
| ATTGTGGCCAAGAGAAAGAG+GGG | 0.688040 | 4.4:-38955869 | MS.gene28308:CDS |
| AAATCCATAACAATCTTCGG+TGG | 0.712870 | 4.4:+38956157 | None:intergenic |
| GTTTCTGAAAGACAACTCAG+TGG | 0.730659 | 4.4:-38956014 | MS.gene28308:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATGACAAAATAAAAAACA+TGG | + | chr4.4:38956181-38956200 | None:intergenic | 15.0% |
| !!! | CAATAATATGTTTACTTTTT+TGG | - | chr4.4:38956028-38956047 | MS.gene28308:CDS | 15.0% |
| !! | ATTATACATATATATGAACC+CGG | - | chr4.4:38955946-38955965 | MS.gene28308:CDS | 20.0% |
| !! | TAGAAAAATGTTATTAAGCT+AGG | - | chr4.4:38955868-38955887 | MS.gene28308:CDS | 20.0% |
| !! | TATATATGTATAATCTCTGT+TGG | + | chr4.4:38955940-38955959 | None:intergenic | 20.0% |
| !!! | GAAGTTAAAATTTTGAAGAA+AGG | - | chr4.4:38956298-38956317 | MS.gene28308:intron | 20.0% |
| ! | ATATTATTGAGCTTGATATC+TGG | + | chr4.4:38956017-38956036 | None:intergenic | 25.0% |
| ! | TCTACTAAAATAACAGAAAG+AGG | + | chr4.4:38956709-38956728 | None:intergenic | 25.0% |
| ! | TGGAAATTTATGGTAAGAAT+GGG | - | chr4.4:38956431-38956450 | MS.gene28308:intron | 25.0% |
| !!! | TACTGAATGAGTTTTAAACT+TGG | + | chr4.4:38955905-38955924 | None:intergenic | 25.0% |
| !!! | TTCTTGGTTTTCACATATAT+TGG | - | chr4.4:38956391-38956410 | MS.gene28308:intron | 25.0% |
| ATGTTCAAGGTGGAAATTTA+TGG | - | chr4.4:38956421-38956440 | MS.gene28308:intron | 30.0% | |
| GTGGAAATTTATGGTAAGAA+TGG | - | chr4.4:38956430-38956449 | MS.gene28308:intron | 30.0% | |
| TATTGGAGATAACATGTTCA+AGG | - | chr4.4:38956408-38956427 | MS.gene28308:intron | 30.0% | |
| ! | TTCTTTGATGATAGCGAAAA+AGG | + | chr4.4:38955692-38955711 | None:intergenic | 30.0% |
| ! | TTTTTCGCTATCATCAAAGA+AGG | - | chr4.4:38955691-38955710 | MS.gene28308:CDS | 30.0% |
| !! | GAAGAAAGCATCAATTATTC+TGG | - | chr4.4:38956252-38956271 | MS.gene28308:intron | 30.0% |
| AAAAAATCCTGCTGATGTCA+AGG | - | chr4.4:38956534-38956553 | MS.gene28308:intron | 35.0% | |
| AAAATAACAGAAAGAGGAGC+AGG | + | chr4.4:38956703-38956722 | None:intergenic | 35.0% | |
| AAATCCATAACAATCTTCGG+TGG | + | chr4.4:38956217-38956236 | None:intergenic | 35.0% | |
| AATTGTGGCTAAGACAAAGA+TGG | - | chr4.4:38956582-38956601 | MS.gene28308:intron | 35.0% | |
| ACCAACAATTGTGACAAAGA+AGG | - | chr4.4:38956660-38956679 | MS.gene28308:intron | 35.0% | |
| ACCGAAGATTGTTATGGATT+TGG | - | chr4.4:38956216-38956235 | MS.gene28308:intron | 35.0% | |
| CAAATGAATTACCATGCACT+TGG | + | chr4.4:38955725-38955744 | None:intergenic | 35.0% | |
| CCAACAATTGTGACAAAGAA+GGG | - | chr4.4:38956661-38956680 | MS.gene28308:CDS | 35.0% | |
| CCCAAATCCATAACAATCTT+CGG | + | chr4.4:38956220-38956239 | None:intergenic | 35.0% | |
| CCGAAGATTGTTATGGATTT+GGG | - | chr4.4:38956217-38956236 | MS.gene28308:intron | 35.0% | |
| GACATTTATCTGCGAAACAT+TGG | - | chr4.4:38956325-38956344 | MS.gene28308:intron | 35.0% | |
| GAGAAATACCTGTCTTTCTT+TGG | - | chr4.4:38955798-38955817 | MS.gene28308:CDS | 35.0% | |
| TTTATCTGCGAAACATTGGT+TGG | - | chr4.4:38956329-38956348 | MS.gene28308:intron | 35.0% | |
| TTTGTCTTAGCCACAATTGT+TGG | + | chr4.4:38956580-38956599 | None:intergenic | 35.0% | |
| ! | TTGATGATAGCGAAAAAGGA+TGG | + | chr4.4:38955688-38955707 | None:intergenic | 35.0% |
| ! | TTTCTGAAAGACAACTCAGT+GGG | - | chr4.4:38956358-38956377 | MS.gene28308:intron | 35.0% |
| !!! | ACATCAGCAGGATTTTTTCT+TGG | + | chr4.4:38956532-38956551 | None:intergenic | 35.0% |
| !!! | TCTTGCTTTTTCTTGAAGCA+TGG | + | chr4.4:38956466-38956485 | None:intergenic | 35.0% |
| AATTGTGGCCAAGAGAAAGA+GGG | - | chr4.4:38956501-38956520 | MS.gene28308:intron | 40.0% | |
| AGTACCACCGAAGATTGTTA+TGG | - | chr4.4:38956210-38956229 | MS.gene28308:intron | 40.0% | |
| ATCAGCATCCAAAGAAAGAC+AGG | + | chr4.4:38955809-38955828 | None:intergenic | 40.0% | |
| CCCTTCTTTGTCACAATTGT+TGG | + | chr4.4:38956664-38956683 | None:intergenic | 40.0% | |
| TCTTTCTCTTGGCCACAATT+GGG | + | chr4.4:38956501-38956520 | None:intergenic | 40.0% | |
| TGGAGATAACATGTTCAAGG+TGG | - | chr4.4:38956411-38956430 | MS.gene28308:intron | 40.0% | |
| TTTCCAACGCATACTCTCTT+TGG | + | chr4.4:38956622-38956641 | None:intergenic | 40.0% | |
| ! | AATCCAAAGAGAGTATGCGT+TGG | - | chr4.4:38956616-38956635 | MS.gene28308:intron | 40.0% |
| ! | GTTTCTGAAAGACAACTCAG+TGG | - | chr4.4:38956357-38956376 | MS.gene28308:intron | 40.0% |
| ! | TAATCTCTGTTGGTGAGCTA+AGG | + | chr4.4:38955930-38955949 | None:intergenic | 40.0% |
| ! | TGGATTTGGGTGAAGAGTTT+TGG | - | chr4.4:38956230-38956249 | MS.gene28308:intron | 40.0% |
| ! | TTTTCTTCCTTGACATCAGC+AGG | + | chr4.4:38956544-38956563 | None:intergenic | 40.0% |
| AGAAGCTGCACCAACAATTG+TGG | - | chr4.4:38956567-38956586 | MS.gene28308:intron | 45.0% | |
| AGTGGGACTTGAAGAGTTCT+TGG | - | chr4.4:38956375-38956394 | MS.gene28308:intron | 45.0% | |
| ATATGAACCCGGATTCCCTA+CGG | - | chr4.4:38955957-38955976 | MS.gene28308:CDS | 45.0% | |
| ATGCTCTTCGAGTGAGAAGT+GGG | - | chr4.4:38956276-38956295 | MS.gene28308:intron | 45.0% | |
| ATTGTGGCCAAGAGAAAGAG+GGG | - | chr4.4:38956502-38956521 | MS.gene28308:intron | 45.0% | |
| CAATTGTGGCCAAGAGAAAG+AGG | - | chr4.4:38956500-38956519 | MS.gene28308:intron | 45.0% | |
| CGTTGGAAAACAAAACGCAG+AGG | - | chr4.4:38956633-38956652 | MS.gene28308:intron | 45.0% | |
| CTCTTTCTCTTGGCCACAAT+TGG | + | chr4.4:38956502-38956521 | None:intergenic | 45.0% | |
| CTTTCTCTTGGCCACAATTG+GGG | + | chr4.4:38956500-38956519 | None:intergenic | 45.0% | |
| GATCATCCAATCGAGATGGA+CGG | + | chr4.4:38956055-38956074 | None:intergenic | 45.0% | |
| GCTTGCATTGAATGACCGTA+GGG | + | chr4.4:38955975-38955994 | None:intergenic | 45.0% | |
| GTCATTCAATGCAAGCAGAC+AGG | - | chr4.4:38955979-38955998 | MS.gene28308:CDS | 45.0% | |
| TATGCTCTTCGAGTGAGAAG+TGG | - | chr4.4:38956275-38956294 | MS.gene28308:intron | 45.0% | |
| TCGTGATCATCCAATCGAGA+TGG | + | chr4.4:38956059-38956078 | None:intergenic | 45.0% | |
| TGCTTGCATTGAATGACCGT+AGG | + | chr4.4:38955976-38955995 | None:intergenic | 45.0% | |
| TTGAATGACCGTAGGGAATC+CGG | + | chr4.4:38955968-38955987 | None:intergenic | 45.0% | |
| AGGCTTCAACACCAAGTGCA+TGG | - | chr4.4:38955711-38955730 | MS.gene28308:CDS | 50.0% | |
| AGTTGTTGCAGCCCCAATTG+TGG | - | chr4.4:38956486-38956505 | MS.gene28308:intron | 50.0% | |
| GTGAATGCTTGCAGTCTGCA+GGG | - | chr4.4:38956094-38956113 | MS.gene28308:CDS | 50.0% | |
| TGAATGACCGTAGGGAATCC+GGG | + | chr4.4:38955967-38955986 | None:intergenic | 50.0% | |
| TGGTCTACCCCTCTTTCTCT+TGG | + | chr4.4:38956512-38956531 | None:intergenic | 50.0% | |
| TTTGGACCGTCCATCTCGAT+TGG | - | chr4.4:38956046-38956065 | MS.gene28308:CDS | 50.0% | |
| CAGTCTGCAGGGAATTCGAC+TGG | - | chr4.4:38956105-38956124 | MS.gene28308:CDS | 55.0% | |
| CGTGAATGCTTGCAGTCTGC+AGG | - | chr4.4:38956093-38956112 | MS.gene28308:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 38955661 | 38956732 | 38955661 | ID=MS.gene28308 |
| chr4.4 | mRNA | 38955661 | 38956732 | 38955661 | ID=MS.gene28308.t1;Parent=MS.gene28308 |
| chr4.4 | exon | 38956661 | 38956732 | 38956661 | ID=MS.gene28308.t1.exon1;Parent=MS.gene28308.t1 |
| chr4.4 | CDS | 38956661 | 38956732 | 38956661 | ID=cds.MS.gene28308.t1;Parent=MS.gene28308.t1 |
| chr4.4 | exon | 38955661 | 38956185 | 38955661 | ID=MS.gene28308.t1.exon2;Parent=MS.gene28308.t1 |
| chr4.4 | CDS | 38955661 | 38956185 | 38955661 | ID=cds.MS.gene28308.t1;Parent=MS.gene28308.t1 |
| Gene Sequence |
| Protein sequence |
