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.gene77863.t1 | XP_025684871.1 | 60.4 | 328 | 129 | 1 | 1 | 328 | 473 | 799 | 1.30E-106 | 396.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77863.t1 | P08770 | 34.0 | 332 | 202 | 7 | 1 | 328 | 470 | 788 | 1.2e-39 | 165.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77863.t1 | A0A2Z6NAN0 | 59.4 | 330 | 127 | 4 | 1 | 328 | 10 | 334 | 4.4e-104 | 387.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049262 | MS.gene77863 | 0.807338 | 5.31E-50 | -1.69E-46 |
| MS.gene055056 | MS.gene77863 | 0.806079 | 9.79E-50 | -1.69E-46 |
| MS.gene05925 | MS.gene77863 | 0.807432 | 5.07E-50 | -1.69E-46 |
| MS.gene059276 | MS.gene77863 | 0.843218 | 1.60E-58 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene77863.t1 | AT3G42170 | 28.028 | 289 | 187 | 6 | 1 | 288 | 383 | 651 | 1.37e-33 | 130 |
| MS.gene77863.t1 | AT3G42170 | 28.028 | 289 | 187 | 6 | 1 | 288 | 405 | 673 | 1.55e-33 | 130 |
| MS.gene77863.t1 | AT1G18560 | 24.775 | 222 | 139 | 6 | 73 | 288 | 449 | 648 | 2.28e-12 | 68.2 |
Find 52 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGAGGATCGACACCAATTT+TGG | 0.158761 | 3.4:+25604171 | None:intergenic |
| GATATTACTAACAAGGTTTC+TGG | 0.158954 | 3.4:-25604878 | MS.gene77863:CDS |
| ACAAATTGCATCTTGTTTCT+AGG | 0.170369 | 3.4:+25604665 | None:intergenic |
| TTGGGCAAGAATTGGATATT+TGG | 0.245664 | 3.4:+25604325 | None:intergenic |
| CACTAGTTTGTGCCCAAAAT+TGG | 0.262710 | 3.4:-25604184 | MS.gene77863:CDS |
| AACTCAATCTTCTAATGATA+TGG | 0.269191 | 3.4:-25604516 | MS.gene77863:CDS |
| ATCAGATGTTGAAGATCTTT+TGG | 0.279008 | 3.4:-25604141 | MS.gene77863:CDS |
| CAATTCAATATGTCAAAATT+AGG | 0.283111 | 3.4:+25604365 | None:intergenic |
| TTTGGAAAATGCATTGGATT+TGG | 0.310667 | 3.4:-25604474 | MS.gene77863:CDS |
| AGGTAAGTATGATAAATATT+GGG | 0.337982 | 3.4:-25604738 | MS.gene77863:CDS |
| AGTGGAAGAACTTGATGTTT+TGG | 0.338776 | 3.4:-25604492 | MS.gene77863:CDS |
| GCCTGTTTCTACTGTTGCTT+CGG | 0.344922 | 3.4:-25604279 | MS.gene77863:CDS |
| ACTAGTGCTTCAACTGTCTT+TGG | 0.347826 | 3.4:+25604200 | None:intergenic |
| AAGGTAAGTATGATAAATAT+TGG | 0.362831 | 3.4:-25604739 | MS.gene77863:CDS |
| CTAGCAACTTGGGCAAGAAT+TGG | 0.369016 | 3.4:+25604317 | None:intergenic |
| TTTGGAGGACTTAGAACAAC+TGG | 0.375696 | 3.4:-25604123 | MS.gene77863:CDS |
| GTAGAGTGCTAAATTGTTAC+AGG | 0.377011 | 3.4:-25604235 | MS.gene77863:CDS |
| TCTTCAGTCAGCTGTGGTAT+TGG | 0.398254 | 3.4:+25603967 | None:intergenic |
| AGATATAAGCTTTGTATTCA+AGG | 0.410404 | 3.4:-25604554 | MS.gene77863:CDS |
| CCAACACATCTCTAGCAACT+TGG | 0.420043 | 3.4:+25604306 | None:intergenic |
| TCTTCAACATCTGATGCAAT+TGG | 0.422249 | 3.4:+25604149 | None:intergenic |
| ACTCCCTATCCATTTCTTGA+AGG | 0.438601 | 3.4:+25604799 | None:intergenic |
| TATTGACTACCTTCAAGAAA+TGG | 0.439729 | 3.4:-25604808 | MS.gene77863:CDS |
| ACAAGATGCAATTTGTTAAG+TGG | 0.463036 | 3.4:-25604658 | MS.gene77863:CDS |
| TCCGAAGCAACAGTAGAAAC+AGG | 0.468162 | 3.4:+25604278 | None:intergenic |
| GGCAAGAATTGGATATTTGG+TGG | 0.470268 | 3.4:+25604328 | None:intergenic |
| CAAGATGCAATTTGTTAAGT+GGG | 0.478466 | 3.4:-25604657 | MS.gene77863:CDS |
| GGGAGTTCTGACAAACATCT+TGG | 0.487268 | 3.4:-25604782 | MS.gene77863:CDS |
| CATGAATAAATGTTATGAAA+AGG | 0.491303 | 3.4:-25604633 | MS.gene77863:CDS |
| GGTAAGTATGATAAATATTG+GGG | 0.512358 | 3.4:-25604737 | MS.gene77863:CDS |
| ACTACCTTCAAGAAATGGAT+AGG | 0.517007 | 3.4:-25604803 | MS.gene77863:CDS |
| TGAAGTGGATTTGTATCTCA+TGG | 0.531319 | 3.4:-25604408 | MS.gene77863:CDS |
| AAACATCTTGGAGACATGGC+TGG | 0.534940 | 3.4:-25604770 | MS.gene77863:CDS |
| ATCTTCTAATGATATGGAAG+TGG | 0.541150 | 3.4:-25604510 | MS.gene77863:CDS |
| CAACACATCTCTAGCAACTT+GGG | 0.551817 | 3.4:+25604307 | None:intergenic |
| ACAATTTAGCACTCTACCTC+CGG | 0.555600 | 3.4:+25604241 | None:intergenic |
| CAGTGCAATTAAGTTTCAGA+AGG | 0.555821 | 3.4:-25605017 | MS.gene77863:CDS |
| GTGGATTTGTATCTCATGGA+GGG | 0.558666 | 3.4:-25604404 | MS.gene77863:CDS |
| TAATATGAATGTAAATGAAG+TGG | 0.560827 | 3.4:-25604423 | MS.gene77863:CDS |
| CCAAGTTGCTAGAGATGTGT+TGG | 0.581621 | 3.4:-25604306 | MS.gene77863:CDS |
| CTACCTTCAAGAAATGGATA+GGG | 0.591958 | 3.4:-25604802 | MS.gene77863:CDS |
| GACTTAGAACAACTGGAACT+AGG | 0.592987 | 3.4:-25604116 | MS.gene77863:intron |
| TGACATATTGAATTGGTGGA+AGG | 0.597517 | 3.4:-25604357 | MS.gene77863:CDS |
| TGACAAACATCTTGGAGACA+TGG | 0.601396 | 3.4:-25604774 | MS.gene77863:CDS |
| CTTGTTGATATATGTTGCAG+TGG | 0.608677 | 3.4:-25604696 | MS.gene77863:CDS |
| AACATCTGATGCAATTGGAG+AGG | 0.621951 | 3.4:+25604154 | None:intergenic |
| AAGATGCAATTTGTTAAGTG+GGG | 0.634337 | 3.4:-25604656 | MS.gene77863:CDS |
| GACATCTCTTCAGTCAGCTG+TGG | 0.639310 | 3.4:+25603961 | None:intergenic |
| GACATGGCTGGAATGATGAA+AGG | 0.644026 | 3.4:-25604758 | MS.gene77863:CDS |
| AGCAACAGTAGAAACAGGCA+TGG | 0.654712 | 3.4:+25604283 | None:intergenic |
| AGTGGATTTGTATCTCATGG+AGG | 0.666727 | 3.4:-25604405 | MS.gene77863:CDS |
| GTAAGTATGATAAATATTGG+GGG | 0.704348 | 3.4:-25604736 | MS.gene77863:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATATCATAAAATATTTTC+AGG | + | chr3.4:25604076-25604095 | None:intergenic | 10.0% |
| !!! | ATTTTATGATATTACTAACA+AGG | - | chr3.4:25604082-25604101 | MS.gene77863:intron | 15.0% |
| !! | AAGGTAAGTATGATAAATAT+TGG | - | chr3.4:25604228-25604247 | MS.gene77863:CDS | 20.0% |
| !! | AGGTAAGTATGATAAATATT+GGG | - | chr3.4:25604229-25604248 | MS.gene77863:CDS | 20.0% |
| !! | CAATTCAATATGTCAAAATT+AGG | + | chr3.4:25604605-25604624 | None:intergenic | 20.0% |
| !! | CATGAATAAATGTTATGAAA+AGG | - | chr3.4:25604334-25604353 | MS.gene77863:CDS | 20.0% |
| !! | TAATATGAATGTAAATGAAG+TGG | - | chr3.4:25604544-25604563 | MS.gene77863:CDS | 20.0% |
| !! | TCTTATTGTTGAATTTCTTA+TGG | - | chr3.4:25604886-25604905 | MS.gene77863:CDS | 20.0% |
| !!! | CTAATTTTGACATATTGAAT+TGG | - | chr3.4:25604603-25604622 | MS.gene77863:CDS | 20.0% |
| !!! | TATTTTCAGGAATTTAACAA+AGG | + | chr3.4:25604063-25604082 | None:intergenic | 20.0% |
| ! | AACTCAATCTTCTAATGATA+TGG | - | chr3.4:25604451-25604470 | MS.gene77863:CDS | 25.0% |
| ! | GGTAAGTATGATAAATATTG+GGG | - | chr3.4:25604230-25604249 | MS.gene77863:CDS | 25.0% |
| ! | GTAAGTATGATAAATATTGG+GGG | - | chr3.4:25604231-25604250 | MS.gene77863:CDS | 25.0% |
| !! | AGATATAAGCTTTGTATTCA+AGG | - | chr3.4:25604413-25604432 | MS.gene77863:CDS | 25.0% |
| !!! | ATTTTGACATATTGAATTGG+TGG | - | chr3.4:25604606-25604625 | MS.gene77863:CDS | 25.0% |
| !!! | TGTTGATTTTTTGTCTGATA+AGG | - | chr3.4:25604361-25604380 | MS.gene77863:CDS | 25.0% |
| !!! | TTTTTTGTCTGATAAGGTAA+AGG | - | chr3.4:25604367-25604386 | MS.gene77863:CDS | 25.0% |
| ATCTTCTAATGATATGGAAG+TGG | - | chr3.4:25604457-25604476 | MS.gene77863:CDS | 30.0% | |
| GATATTACTAACAAGGTTTC+TGG | - | chr3.4:25604089-25604108 | MS.gene77863:intron | 30.0% | |
| TTTGGAAAATGCATTGGATT+TGG | - | chr3.4:25604493-25604512 | MS.gene77863:CDS | 30.0% | |
| ! | ACAAATTGCATCTTGTTTCT+AGG | + | chr3.4:25604305-25604324 | None:intergenic | 30.0% |
| ! | ATCAGATGTTGAAGATCTTT+TGG | - | chr3.4:25604826-25604845 | MS.gene77863:CDS | 30.0% |
| ! | TATTGACTACCTTCAAGAAA+TGG | - | chr3.4:25604159-25604178 | MS.gene77863:CDS | 30.0% |
| !! | AAGATGCAATTTGTTAAGTG+GGG | - | chr3.4:25604311-25604330 | MS.gene77863:CDS | 30.0% |
| !! | ACAAGATGCAATTTGTTAAG+TGG | - | chr3.4:25604309-25604328 | MS.gene77863:CDS | 30.0% |
| !! | CAAGATGCAATTTGTTAAGT+GGG | - | chr3.4:25604310-25604329 | MS.gene77863:CDS | 30.0% |
| !!! | TGATGTTTTGGAAAATGCAT+TGG | - | chr3.4:25604487-25604506 | MS.gene77863:CDS | 30.0% |
| ACTACCTTCAAGAAATGGAT+AGG | - | chr3.4:25604164-25604183 | MS.gene77863:CDS | 35.0% | |
| CAGTGCAATTAAGTTTCAGA+AGG | - | chr3.4:25603950-25603969 | MS.gene77863:CDS | 35.0% | |
| CTACCTTCAAGAAATGGATA+GGG | - | chr3.4:25604165-25604184 | MS.gene77863:CDS | 35.0% | |
| CTTGTTGATATATGTTGCAG+TGG | - | chr3.4:25604271-25604290 | MS.gene77863:CDS | 35.0% | |
| GGTTCCAAAAAATGAGGATT+GGG | - | chr3.4:25604025-25604044 | MS.gene77863:intron | 35.0% | |
| TCTTCAACATCTGATGCAAT+TGG | + | chr3.4:25604821-25604840 | None:intergenic | 35.0% | |
| TGACATATTGAATTGGTGGA+AGG | - | chr3.4:25604610-25604629 | MS.gene77863:CDS | 35.0% | |
| TTGGGCAAGAATTGGATATT+TGG | + | chr3.4:25604645-25604664 | None:intergenic | 35.0% | |
| ! | AGATGTTGAAGATCTTTTGG+AGG | - | chr3.4:25604829-25604848 | MS.gene77863:CDS | 35.0% |
| ! | AGTGGAAGAACTTGATGTTT+TGG | - | chr3.4:25604475-25604494 | MS.gene77863:CDS | 35.0% |
| ! | GTAGAGTGCTAAATTGTTAC+AGG | - | chr3.4:25604732-25604751 | MS.gene77863:CDS | 35.0% |
| ! | TGAAGTGGATTTGTATCTCA+TGG | - | chr3.4:25604559-25604578 | MS.gene77863:CDS | 35.0% |
| !!! | TTCTCCCAATCCTCATTTTT+TGG | + | chr3.4:25604032-25604051 | None:intergenic | 35.0% |
| AACATCTGATGCAATTGGAG+AGG | + | chr3.4:25604816-25604835 | None:intergenic | 40.0% | |
| ACAATTTAGCACTCTACCTC+CGG | + | chr3.4:25604729-25604748 | None:intergenic | 40.0% | |
| ACTAGTGCTTCAACTGTCTT+TGG | + | chr3.4:25604770-25604789 | None:intergenic | 40.0% | |
| ACTCCCTATCCATTTCTTGA+AGG | + | chr3.4:25604171-25604190 | None:intergenic | 40.0% | |
| CAACACATCTCTAGCAACTT+GGG | + | chr3.4:25604663-25604682 | None:intergenic | 40.0% | |
| GACTTAGAACAACTGGAACT+AGG | - | chr3.4:25604851-25604870 | MS.gene77863:CDS | 40.0% | |
| GGCAAGAATTGGATATTTGG+TGG | + | chr3.4:25604642-25604661 | None:intergenic | 40.0% | |
| GGGTTCCAAAAAATGAGGAT+TGG | - | chr3.4:25604024-25604043 | MS.gene77863:intron | 40.0% | |
| GTGGATTTGTATCTCATGGA+GGG | - | chr3.4:25604563-25604582 | MS.gene77863:CDS | 40.0% | |
| TGACAAACATCTTGGAGACA+TGG | - | chr3.4:25604193-25604212 | MS.gene77863:CDS | 40.0% | |
| TTTGGAGGACTTAGAACAAC+TGG | - | chr3.4:25604844-25604863 | MS.gene77863:CDS | 40.0% | |
| ! | AATTTTCGCGTATCGAAGGT+GGG | - | chr3.4:25604003-25604022 | MS.gene77863:intron | 40.0% |
| ! | AGAGGATCGACACCAATTTT+GGG | + | chr3.4:25604798-25604817 | None:intergenic | 40.0% |
| ! | AGTGGATTTGTATCTCATGG+AGG | - | chr3.4:25604562-25604581 | MS.gene77863:CDS | 40.0% |
| ! | CACTAGTTTGTGCCCAAAAT+TGG | - | chr3.4:25604783-25604802 | MS.gene77863:CDS | 40.0% |
| AAACATCTTGGAGACATGGC+TGG | - | chr3.4:25604197-25604216 | MS.gene77863:CDS | 45.0% | |
| AGCAACAGTAGAAACAGGCA+TGG | + | chr3.4:25604687-25604706 | None:intergenic | 45.0% | |
| AGGTGGGGTTCCAAAAAATG+AGG | - | chr3.4:25604019-25604038 | MS.gene77863:intron | 45.0% | |
| CCAACACATCTCTAGCAACT+TGG | + | chr3.4:25604664-25604683 | None:intergenic | 45.0% | |
| CCAAGTTGCTAGAGATGTGT+TGG | - | chr3.4:25604661-25604680 | MS.gene77863:CDS | 45.0% | |
| CTAGCAACTTGGGCAAGAAT+TGG | + | chr3.4:25604653-25604672 | None:intergenic | 45.0% | |
| GACATGGCTGGAATGATGAA+AGG | - | chr3.4:25604209-25604228 | MS.gene77863:CDS | 45.0% | |
| TCCGAAGCAACAGTAGAAAC+AGG | + | chr3.4:25604692-25604711 | None:intergenic | 45.0% | |
| TCTTCAGTCAGCTGTGGTAT+TGG | + | chr3.4:25605003-25605022 | None:intergenic | 45.0% | |
| ! | ATTTTCGCGTATCGAAGGTG+GGG | - | chr3.4:25604004-25604023 | MS.gene77863:intron | 45.0% |
| ! | GAATTTTCGCGTATCGAAGG+TGG | - | chr3.4:25604002-25604021 | MS.gene77863:intron | 45.0% |
| ! | GAGAGGATCGACACCAATTT+TGG | + | chr3.4:25604799-25604818 | None:intergenic | 45.0% |
| ! | GCTGAATTTTCGCGTATCGA+AGG | - | chr3.4:25603999-25604018 | MS.gene77863:intron | 45.0% |
| ! | GGGAGTTCTGACAAACATCT+TGG | - | chr3.4:25604185-25604204 | MS.gene77863:CDS | 45.0% |
| !! | GCCTGTTTCTACTGTTGCTT+CGG | - | chr3.4:25604688-25604707 | MS.gene77863:CDS | 45.0% |
| GACATCTCTTCAGTCAGCTG+TGG | + | chr3.4:25605009-25605028 | None:intergenic | 50.0% | |
| !! | TCGGAGTCTGCTTTTAGCAC+CGG | - | chr3.4:25604707-25604726 | MS.gene77863:CDS | 50.0% |
| !! | GAGTCTGCTTTTAGCACCGG+AGG | - | chr3.4:25604710-25604729 | MS.gene77863:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 25603942 | 25605047 | 25603942 | ID=MS.gene77863 |
| chr3.4 | mRNA | 25603942 | 25605047 | 25603942 | ID=MS.gene77863.t1;Parent=MS.gene77863 |
| chr3.4 | exon | 25604117 | 25605047 | 25604117 | ID=MS.gene77863.t1.exon1;Parent=MS.gene77863.t1 |
| chr3.4 | CDS | 25604117 | 25605047 | 25604117 | ID=cds.MS.gene77863.t1;Parent=MS.gene77863.t1 |
| chr3.4 | exon | 25603942 | 25603997 | 25603942 | ID=MS.gene77863.t1.exon2;Parent=MS.gene77863.t1 |
| chr3.4 | CDS | 25603942 | 25603997 | 25603942 | ID=cds.MS.gene77863.t1;Parent=MS.gene77863.t1 |
| Gene Sequence |
| Protein sequence |
