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.gene50109.t1 | XP_027339222.1 | 86.5 | 37 | 5 | 0 | 5 | 41 | 132 | 168 | 4.10E-07 | 63.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50109.t1 | A0A072V869 | 86.5 | 37 | 5 | 0 | 5 | 41 | 132 | 168 | 3.0e-07 | 63.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049254 | MS.gene50109 | 0.801989 | 6.94E-49 | -1.69E-46 |
| MS.gene053079 | MS.gene50109 | 0.802435 | 5.62E-49 | -1.69E-46 |
| MS.gene05423 | MS.gene50109 | 0.814554 | 1.45E-51 | -1.69E-46 |
| MS.gene05690 | MS.gene50109 | 0.801763 | 7.72E-49 | -1.69E-46 |
| MS.gene057576 | MS.gene50109 | 0.825972 | 3.50E-54 | -1.69E-46 |
| MS.gene057584 | MS.gene50109 | 0.833161 | 6.25E-56 | -1.69E-46 |
| MS.gene057588 | MS.gene50109 | 0.807039 | 6.14E-50 | -1.69E-46 |
| MS.gene060634 | MS.gene50109 | -0.804401 | 2.20E-49 | -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.gene50109.t1 | MTR_2g041420 | 84.211 | 38 | 6 | 0 | 5 | 42 | 132 | 169 | 2.81e-14 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 111 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTCTAGGGTCAGTTGTAC+TGG | 0.371632 | 5.4:-63648579 | MS.gene50109:intron |
| GCATTTAAGATTGTGTTAGA+TGG | 0.395359 | 5.4:-63649588 | MS.gene50109:CDS |
| GTACTGGTTATACTACATAT+TGG | 0.413487 | 5.4:-63648563 | MS.gene50109:CDS |
| AGCAAAGGGTGAAGTTGAAC+TGG | 0.449741 | 5.4:-63649619 | MS.gene50109:CDS |
| TGGAGAATGCGCCTAGCCCT+TGG | 0.469853 | 5.4:-63648537 | MS.gene50109:CDS |
| TATACCTGGCCTAAAAGAGC+TGG | 0.535304 | 5.4:+63649549 | None:intergenic |
| TCATCAGAGTTCCAAGGGCT+AGG | 0.550328 | 5.4:+63648526 | None:intergenic |
| TACTGCCAAGTGTAGTATGA+AGG | 0.575853 | 5.4:+63648488 | None:intergenic |
| TCATTGAATTACTTGCCACT+TGG | 0.576506 | 5.4:+63648465 | None:intergenic |
| CAGAGTTCATCAGAGTTCCA+AGG | 0.578541 | 5.4:+63648520 | None:intergenic |
| AGAGACCTTCATACTACACT+TGG | 0.606903 | 5.4:-63648493 | MS.gene50109:CDS |
| AGAGTTCATCAGAGTTCCAA+GGG | 0.621590 | 5.4:+63648521 | None:intergenic |
| GTTATACTACATATTGGACA+TGG | 0.669709 | 5.4:-63648557 | MS.gene50109:CDS |
| CTACACTTGGCAGTACCAAG+TGG | 0.706138 | 5.4:-63648480 | MS.gene50109:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATATCAATTAAGATAATA+AGG | + | chr5.4:63649764-63649783 | None:intergenic | 10.0% |
| !! | TATACTTGATAAAATTTATA+TGG | - | chr5.4:63648415-63648434 | MS.gene50109:intron | 10.0% |
| !! | TAATTGATATTAATGTTACT+AGG | - | chr5.4:63649772-63649791 | MS.gene50109:intron | 15.0% |
| !! | TTTATATGGTTAATTCTTAT+AGG | - | chr5.4:63648429-63648448 | MS.gene50109:intron | 15.0% |
| !!! | ATGATTTTATTATATACATC+TGG | - | chr5.4:63648733-63648752 | MS.gene50109:intron | 15.0% |
| !!! | TGATTTTATTATATACATCT+GGG | - | chr5.4:63648734-63648753 | MS.gene50109:intron | 15.0% |
| !! | AACATTTATCAATAATTCTC+TGG | - | chr5.4:63649462-63649481 | MS.gene50109:intron | 20.0% |
| !! | TGAATGAGTAAATATTTGAT+AGG | + | chr5.4:63649427-63649446 | None:intergenic | 20.0% |
| ! | AACTTATCTACTATTATACC+TGG | + | chr5.4:63648551-63648570 | None:intergenic | 25.0% |
| ! | AAGCAGAGTTAATTATTAAG+TGG | + | chr5.4:63648882-63648901 | None:intergenic | 25.0% |
| ! | GAGTTACGATATAATGTTAA+GGG | + | chr5.4:63648907-63648926 | None:intergenic | 25.0% |
| ! | TATGTACTCAAAACAGTTAA+AGG | + | chr5.4:63649309-63649328 | None:intergenic | 25.0% |
| ! | TCAGAAACTAATAGAATGTA+GGG | + | chr5.4:63648660-63648679 | None:intergenic | 25.0% |
| ! | TCTAAATTCAATGAGTTTAG+TGG | - | chr5.4:63649713-63649732 | MS.gene50109:intron | 25.0% |
| ! | TTACTCATTCATGAATAAAC+TGG | - | chr5.4:63649436-63649455 | MS.gene50109:intron | 25.0% |
| ! | TTCAGAAACTAATAGAATGT+AGG | + | chr5.4:63648661-63648680 | None:intergenic | 25.0% |
| !!! | ATTTAGAGACCTATTTTGAA+AGG | + | chr5.4:63649700-63649719 | None:intergenic | 25.0% |
| !!! | TATTTTGATGATTTTGTGCA+TGG | - | chr5.4:63648274-63648293 | MS.gene50109:intron | 25.0% |
| !!! | TTCATACTAAGATGGTTTTA+TGG | + | chr5.4:63649108-63649127 | None:intergenic | 25.0% |
| AAAATCAAGGATGAGTTTAG+TGG | + | chr5.4:63649670-63649689 | None:intergenic | 30.0% | |
| ACTAGGAATGAATTACTTTG+AGG | - | chr5.4:63648766-63648785 | MS.gene50109:intron | 30.0% | |
| CATGTATTCAATGTTGAGTT+TGG | + | chr5.4:63648711-63648730 | None:intergenic | 30.0% | |
| CTACATAGCCTGTTTAATTA+AGG | - | chr5.4:63649397-63649416 | MS.gene50109:intron | 30.0% | |
| CTTAATTAAACAGGCTATGT+AGG | + | chr5.4:63649399-63649418 | None:intergenic | 30.0% | |
| GGAGTTACGATATAATGTTA+AGG | + | chr5.4:63648908-63648927 | None:intergenic | 30.0% | |
| GTTATACTACATATTGGACA+TGG | - | chr5.4:63649526-63649545 | MS.gene50109:intron | 30.0% | |
| TAATTTCCATCTTGGCAAAT+AGG | - | chr5.4:63649812-63649831 | MS.gene50109:intron | 30.0% | |
| TAGGAGAACCTTAATTAAAC+AGG | + | chr5.4:63649408-63649427 | None:intergenic | 30.0% | |
| ! | AAACTCATCCTTGATTTTGT+AGG | - | chr5.4:63649672-63649691 | MS.gene50109:intron | 30.0% |
| ! | AACTCATCCTTGATTTTGTA+GGG | - | chr5.4:63649673-63649692 | MS.gene50109:intron | 30.0% |
| ! | GAAGGATTTAATTTCCATCT+TGG | - | chr5.4:63649804-63649823 | MS.gene50109:intron | 30.0% |
| ! | GCATTTAAGATTGTGTTAGA+TGG | - | chr5.4:63648495-63648514 | MS.gene50109:CDS | 30.0% |
| !! | ATGTGTTTTTGTTCACATGA+AGG | - | chr5.4:63648574-63648593 | MS.gene50109:CDS | 30.0% |
| !! | GGTTTTATGGACTTTTTAAG+AGG | + | chr5.4:63649095-63649114 | None:intergenic | 30.0% |
| !! | GTACTGGTTATACTACATAT+TGG | - | chr5.4:63649520-63649539 | MS.gene50109:intron | 30.0% |
| !! | TATGGACTTTTTAAGAGGAT+AGG | + | chr5.4:63649090-63649109 | None:intergenic | 30.0% |
| !! | TTTCAGCTAAGATGGTTTTA+TGG | + | chr5.4:63649281-63649300 | None:intergenic | 30.0% |
| !!! | ATTTTAAAACTCCAAGTCCT+AGG | - | chr5.4:63648612-63648631 | MS.gene50109:intron | 30.0% |
| AACTTGTACTCATATCACCT+AGG | + | chr5.4:63648632-63648651 | None:intergenic | 35.0% | |
| GTACTCAAAACAGTTAAAGG+TGG | + | chr5.4:63649306-63649325 | None:intergenic | 35.0% | |
| TCATTGAATTACTTGCCACT+TGG | + | chr5.4:63649621-63649640 | None:intergenic | 35.0% | |
| TTCAAAGAGGAATGAAAGAG+AGG | + | chr5.4:63648823-63648842 | None:intergenic | 35.0% | |
| TTCAATGTTGAGTTTGGACT+TGG | + | chr5.4:63648705-63648724 | None:intergenic | 35.0% | |
| TTGTAGGGACCTTTCAAAAT+AGG | - | chr5.4:63649688-63649707 | MS.gene50109:intron | 35.0% | |
| !! | GGTTTTATGGACTTTTGAAG+AGG | + | chr5.4:63649268-63649287 | None:intergenic | 35.0% |
| !! | TCATGTTTTCCTTCTGAAGA+AGG | + | chr5.4:63649018-63649037 | None:intergenic | 35.0% |
| AAACAGGCTATGTAGGAAGA+AGG | + | chr5.4:63649392-63649411 | None:intergenic | 40.0% | |
| AACAGGCTATGTAGGAAGAA+GGG | + | chr5.4:63649391-63649410 | None:intergenic | 40.0% | |
| ACACATTCTTCTGACAGCAA+GGG | + | chr5.4:63648384-63648403 | None:intergenic | 40.0% | |
| AGAGACCTTCATACTACACT+TGG | - | chr5.4:63649590-63649609 | MS.gene50109:CDS | 40.0% | |
| AGAGTTCATCAGAGTTCCAA+GGG | + | chr5.4:63649565-63649584 | None:intergenic | 40.0% | |
| AGGTGGTATTTCAGCTAAGA+TGG | + | chr5.4:63649289-63649308 | None:intergenic | 40.0% | |
| AGTGTAGTTGATCAAGTCGT+CGG | + | chr5.4:63649354-63649373 | None:intergenic | 40.0% | |
| GAAAGGTCCCTACAAAATCA+AGG | + | chr5.4:63649683-63649702 | None:intergenic | 40.0% | |
| GAGATAAAGCCTTCTTCAGA+AGG | - | chr5.4:63649006-63649025 | MS.gene50109:intron | 40.0% | |
| GGATATGAGCCTTTCCTTAT+TGG | + | chr5.4:63649247-63649266 | None:intergenic | 40.0% | |
| GTTACTAGGTAACATGACGA+AGG | - | chr5.4:63649786-63649805 | MS.gene50109:intron | 40.0% | |
| TACTCATATCACCTAGGACT+TGG | + | chr5.4:63648626-63648645 | None:intergenic | 40.0% | |
| TACTGCCAAGTGTAGTATGA+AGG | + | chr5.4:63649598-63649617 | None:intergenic | 40.0% | |
| TCTCAGTAGTCCTCATTCTA+GGG | - | chr5.4:63649491-63649510 | MS.gene50109:intron | 40.0% | |
| TTCCTGGCAGTGAAAAATCA+CGG | + | chr5.4:63648851-63648870 | None:intergenic | 40.0% | |
| TTCTCAGTAGTCCTCATTCT+AGG | - | chr5.4:63649490-63649509 | MS.gene50109:intron | 40.0% | |
| TTGTTGCCTATTTGCCAAGA+TGG | + | chr5.4:63649821-63649840 | None:intergenic | 40.0% | |
| ! | AGGTCAGCTTTTGTTAGCAA+AGG | - | chr5.4:63648449-63648468 | MS.gene50109:intron | 40.0% |
| ! | GACAATGTTCCAGCTCTTTT+AGG | - | chr5.4:63648525-63648544 | MS.gene50109:CDS | 40.0% |
| ! | GGTCAGCTTTTGTTAGCAAA+GGG | - | chr5.4:63648450-63648469 | MS.gene50109:intron | 40.0% |
| ! | TCTGAAGAAGGCTTTATCTC+TGG | + | chr5.4:63649006-63649025 | None:intergenic | 40.0% |
| ! | TGATTTTTCACTGCCAGGAA+AGG | - | chr5.4:63648851-63648870 | MS.gene50109:intron | 40.0% |
| !! | GCTGGACTAAGATGGTTTTA+TGG | + | chr5.4:63649197-63649216 | None:intergenic | 40.0% |
| AATCACGGAGTGGTTCAAAG+AGG | + | chr5.4:63648836-63648855 | None:intergenic | 45.0% | |
| ACTCCAAGACATCCTGTTTC+TGG | - | chr5.4:63648923-63648942 | MS.gene50109:intron | 45.0% | |
| AGCAAAGGGTGAAGTTGAAC+TGG | - | chr5.4:63648464-63648483 | MS.gene50109:intron | 45.0% | |
| CAGAGTTCATCAGAGTTCCA+AGG | + | chr5.4:63649566-63649585 | None:intergenic | 45.0% | |
| CATTCCTCAGAAAGAGCAAG+TGG | - | chr5.4:63648958-63648977 | MS.gene50109:intron | 45.0% | |
| CCATCTTAGTATGAACGACC+AGG | - | chr5.4:63649113-63649132 | MS.gene50109:intron | 45.0% | |
| CCTGGTCGTTCATACTAAGA+TGG | + | chr5.4:63649116-63649135 | None:intergenic | 45.0% | |
| GAAGGAAAACATGAACGACC+AGG | - | chr5.4:63649024-63649043 | MS.gene50109:intron | 45.0% | |
| GACACATTCTTCTGACAGCA+AGG | + | chr5.4:63648385-63648404 | None:intergenic | 45.0% | |
| GCACAAAAGCTGGACTAAGA+TGG | + | chr5.4:63649205-63649224 | None:intergenic | 45.0% | |
| GCTATGTAGGAAGAAGGGAA+TGG | + | chr5.4:63649386-63649405 | None:intergenic | 45.0% | |
| GGATAGGAGCCTTTCCTTAT+TGG | + | chr5.4:63649074-63649093 | None:intergenic | 45.0% | |
| GTACAACTGACCCTAGAATG+AGG | + | chr5.4:63649504-63649523 | None:intergenic | 45.0% | |
| TATACCTGGCCTAAAAGAGC+TGG | + | chr5.4:63648537-63648556 | None:intergenic | 45.0% | |
| TTAAGTGGCAAGACCTTTCC+TGG | + | chr5.4:63648867-63648886 | None:intergenic | 45.0% | |
| ! | CACTTGCTCTTTCTGAGGAA+TGG | + | chr5.4:63648960-63648979 | None:intergenic | 45.0% |
| ! | CATCTGGGTGATTTGCAACT+AGG | - | chr5.4:63648749-63648768 | MS.gene50109:intron | 45.0% |
| ! | CTCCAAGACATCCTGTTTCT+GGG | - | chr5.4:63648924-63648943 | MS.gene50109:intron | 45.0% |
| !! | CATTCTAGGGTCAGTTGTAC+TGG | - | chr5.4:63649504-63649523 | MS.gene50109:intron | 45.0% |
| CAAGGGACAAACATGAGGCT+TGG | + | chr5.4:63648367-63648386 | None:intergenic | 50.0% | |
| CAGATGCGGCCAATAAGGAA+AGG | - | chr5.4:63649062-63649081 | MS.gene50109:intron | 50.0% | |
| CTACACTTGGCAGTACCAAG+TGG | - | chr5.4:63649603-63649622 | MS.gene50109:CDS | 50.0% | |
| GAAGTTCCAGACCCAGAAAC+AGG | + | chr5.4:63648938-63648957 | None:intergenic | 50.0% | |
| GACAGCAAGGGACAAACATG+AGG | + | chr5.4:63648372-63648391 | None:intergenic | 50.0% | |
| GACCCAGAAACAGGATGTCT+TGG | + | chr5.4:63648929-63648948 | None:intergenic | 50.0% | |
| GGCAGTGAAAAATCACGGAG+TGG | + | chr5.4:63648846-63648865 | None:intergenic | 50.0% | |
| TATGGCAGATGCGGCCAATA+AGG | - | chr5.4:63649057-63649076 | MS.gene50109:intron | 50.0% | |
| TCATCAGAGTTCCAAGGGCT+AGG | + | chr5.4:63649560-63649579 | None:intergenic | 50.0% | |
| ! | CTCCGTGATTTTTCACTGCC+AGG | - | chr5.4:63648846-63648865 | MS.gene50109:intron | 50.0% |
| ! | GTTGCCACTTGCTCTTTCTG+AGG | + | chr5.4:63648965-63648984 | None:intergenic | 50.0% |
| ! | TGTTCCAGCTCTTTTAGGCC+AGG | - | chr5.4:63648530-63648549 | MS.gene50109:CDS | 50.0% |
| !! | AGACATCCTGTTTCTGGGTC+TGG | - | chr5.4:63648929-63648948 | MS.gene50109:intron | 50.0% |
| CTTATTGGCCGCATCTGCCA+GGG | + | chr5.4:63649059-63649078 | None:intergenic | 55.0% | |
| GCACTCTGCTATGGCAGATG+CGG | - | chr5.4:63649048-63649067 | MS.gene50109:intron | 55.0% | |
| CCAGGGAGCTGCACAAAAGC+TGG | + | chr5.4:63649215-63649234 | None:intergenic | 60.0% | |
| CCTGGCAGATGCGGCCAATA+AGG | - | chr5.4:63649230-63649249 | MS.gene50109:intron | 60.0% | |
| CCTTATTGGCCGCATCTGCC+AGG | + | chr5.4:63649060-63649079 | None:intergenic | 60.0% | |
| CGACCAGGTGCACTCTGCTA+TGG | - | chr5.4:63649039-63649058 | MS.gene50109:intron | 60.0% | |
| CTGCCATAGCAGAGTGCACC+TGG | + | chr5.4:63649045-63649064 | None:intergenic | 60.0% | |
| TGGAGAATGCGCCTAGCCCT+TGG | - | chr5.4:63649546-63649565 | MS.gene50109:intron | 60.0% | |
| ! | CCAGCTTTTGTGCAGCTCCC+TGG | - | chr5.4:63649212-63649231 | MS.gene50109:intron | 60.0% |
| GTGCAGCTCCCTGGCAGATG+CGG | - | chr5.4:63649221-63649240 | MS.gene50109:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 63648251 | 63649854 | 63648251 | ID=MS.gene50109 |
| chr5.4 | mRNA | 63648251 | 63649854 | 63648251 | ID=MS.gene50109.t1;Parent=MS.gene50109 |
| chr5.4 | exon | 63649833 | 63649854 | 63649833 | ID=MS.gene50109.t1.exon1;Parent=MS.gene50109.t1 |
| chr5.4 | CDS | 63649833 | 63649854 | 63649833 | ID=cds.MS.gene50109.t1;Parent=MS.gene50109.t1 |
| chr5.4 | exon | 63649554 | 63649654 | 63649554 | ID=MS.gene50109.t1.exon2;Parent=MS.gene50109.t1 |
| chr5.4 | CDS | 63649554 | 63649654 | 63649554 | ID=cds.MS.gene50109.t1;Parent=MS.gene50109.t1 |
| chr5.4 | exon | 63648477 | 63648593 | 63648477 | ID=MS.gene50109.t1.exon3;Parent=MS.gene50109.t1 |
| chr5.4 | CDS | 63648477 | 63648593 | 63648477 | ID=cds.MS.gene50109.t1;Parent=MS.gene50109.t1 |
| chr5.4 | exon | 63648251 | 63648271 | 63648251 | ID=MS.gene50109.t1.exon4;Parent=MS.gene50109.t1 |
| chr5.4 | CDS | 63648251 | 63648271 | 63648251 | ID=cds.MS.gene50109.t1;Parent=MS.gene50109.t1 |
| Gene Sequence |
| Protein sequence |
