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.gene040877.t1 | XP_024630392.1 | 74.8 | 306 | 19 | 2 | 1 | 249 | 1 | 305 | 2.50E-113 | 418.3 |
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.gene040877.t1 | A0A396JU70 | 74.7 | 304 | 19 | 2 | 1 | 247 | 1 | 303 | 2.0e-112 | 414.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene040877.t1 | TF | B3 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene040877.t1 | MTR_4g119990 | 49.541 | 327 | 80 | 9 | 1 | 246 | 1 | 323 | 6.63e-88 | 265 |
| MS.gene040877.t1 | MTR_6g043890 | 49.013 | 304 | 70 | 8 | 1 | 226 | 1 | 297 | 1.86e-80 | 245 |
| MS.gene040877.t1 | MTR_1g035440 | 40.329 | 243 | 46 | 6 | 1 | 144 | 1 | 243 | 2.45e-26 | 103 |
| MS.gene040877.t1 | MTR_1g035460 | 26.638 | 229 | 127 | 8 | 46 | 243 | 77 | 295 | 6.22e-12 | 65.1 |
| MS.gene040877.t1 | MTR_1g108780 | 23.502 | 217 | 139 | 7 | 46 | 242 | 88 | 297 | 9.86e-12 | 64.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTATCTTTGTCAACAAAA+AGG | 0.196489 | 1.2:-18287802 | None:intergenic |
| GAAGAGAATAATTTGAAATT+TGG | 0.198679 | 1.2:+18287887 | MS.gene040877:CDS |
| CTCTATCAATGTATGACTTT+TGG | 0.220204 | 1.2:-18287410 | None:intergenic |
| TATAATTTACCTTCAAAATA+AGG | 0.255936 | 1.2:-18287998 | None:intergenic |
| TTTGGAAACCTTAGAGTAAC+TGG | 0.256715 | 1.2:-18286826 | None:intergenic |
| CTTCATCATCACGGGGTAAA+AGG | 0.262699 | 1.2:+18287098 | MS.gene040877:CDS |
| AAAATCTTCAACACCATCTA+TGG | 0.272927 | 1.2:+18287123 | MS.gene040877:CDS |
| AAGTAGTTGTGATGATATTA+AGG | 0.299219 | 1.2:+18287314 | MS.gene040877:CDS |
| TTCTTACAAACTTCCATAGA+TGG | 0.339692 | 1.2:-18287136 | None:intergenic |
| TAACAAACCCAGTTACTCTA+AGG | 0.363012 | 1.2:+18286818 | MS.gene040877:CDS |
| ATTTCAAATTATTCTCTTCA+CGG | 0.368199 | 1.2:-18287883 | None:intergenic |
| GAGAAAATAACAACTTGAAA+TGG | 0.395512 | 1.2:-18287953 | None:intergenic |
| TGTGTCTTAACAAATTCATT+TGG | 0.404885 | 1.2:-18287746 | None:intergenic |
| TGAATTTGTTAAGACACATA+TGG | 0.433535 | 1.2:+18287751 | MS.gene040877:CDS |
| CTTCACTAGTTTCTCTTGAC+GGG | 0.451754 | 1.2:-18287033 | None:intergenic |
| TCTTCACTAGTTTCTCTTGA+CGG | 0.480853 | 1.2:-18287034 | None:intergenic |
| TGAGAACCCTTCATCATCAC+GGG | 0.497990 | 1.2:+18287090 | MS.gene040877:CDS |
| ATACATTGATAGAGATCGCT+TGG | 0.539899 | 1.2:+18287419 | MS.gene040877:CDS |
| TTTGTGAAAAGGTATTGGAA+AGG | 0.553882 | 1.2:+18286793 | MS.gene040877:CDS |
| AATCTGCACTAACTTGTGGT+TGG | 0.573287 | 1.2:+18287852 | MS.gene040877:CDS |
| TTGAGAACCCTTCATCATCA+CGG | 0.579054 | 1.2:+18287089 | MS.gene040877:CDS |
| TAAGACACATATGGACATGA+TGG | 0.584937 | 1.2:+18287760 | MS.gene040877:CDS |
| AAACAATCTGCACTAACTTG+TGG | 0.589005 | 1.2:+18287848 | MS.gene040877:CDS |
| TTGGAAACCTTAGAGTAACT+GGG | 0.606122 | 1.2:-18286825 | None:intergenic |
| ATGTCTTCTCAAGAGAGTAA+TGG | 0.609709 | 1.2:+18286300 | MS.gene040877:CDS |
| ATTACTCTCTTGAGAAGACA+TGG | 0.618980 | 1.2:-18286298 | None:intergenic |
| ACACATATGGACATGATGGA+AGG | 0.627742 | 1.2:+18287764 | MS.gene040877:CDS |
| AAGCGTGAGCATGTGAACAA+TGG | 0.705898 | 1.2:+18287193 | MS.gene040877:CDS |
| GAGAACCCTTCATCATCACG+GGG | 0.761785 | 1.2:+18287091 | MS.gene040877:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACAATTTATGAAAATTTTA+TGG | + | chr1.2:18288074-18288093 | MS.gene040877:intron | 10.0% |
| !! | AACTATATTTGTGTATTTAT+AGG | + | chr1.2:18287718-18287737 | MS.gene040877:intron | 15.0% |
| !! | GGAAATTCATTTAATATAAT+GGG | + | chr1.2:18288038-18288057 | MS.gene040877:intron | 15.0% |
| !! | TATAATTTACCTTCAAAATA+AGG | - | chr1.2:18288001-18288020 | None:intergenic | 15.0% |
| !!! | TTTTTGCTACTAATTTTTTT+TGG | + | chr1.2:18287268-18287287 | MS.gene040877:intron | 15.0% |
| !! | AATAATGATTGTTCGAATAT+CGG | + | chr1.2:18286558-18286577 | MS.gene040877:intron | 20.0% |
| !! | AATAATTCATGTGTTAAGAA+GGG | + | chr1.2:18288124-18288143 | MS.gene040877:intron | 20.0% |
| !! | ATTTATCTTTGTCAACAAAA+AGG | - | chr1.2:18287805-18287824 | None:intergenic | 20.0% |
| !! | ATTTCAAATTATTCTCTTCA+CGG | - | chr1.2:18287886-18287905 | None:intergenic | 20.0% |
| !! | CCAAATTATTATACCATAAT+TGG | + | chr1.2:18287544-18287563 | MS.gene040877:intron | 20.0% |
| !! | CCAATTATGGTATAATAATT+TGG | - | chr1.2:18287547-18287566 | None:intergenic | 20.0% |
| !! | CGGAAATTCATTTAATATAA+TGG | + | chr1.2:18288037-18288056 | MS.gene040877:intron | 20.0% |
| !! | TAAATATGCATTGCAAAATT+TGG | + | chr1.2:18286418-18286437 | MS.gene040877:intron | 20.0% |
| !! | TAATAATTCATGTGTTAAGA+AGG | + | chr1.2:18288123-18288142 | MS.gene040877:intron | 20.0% |
| !! | TATATTAAATGAATTTCCGA+TGG | - | chr1.2:18288036-18288055 | None:intergenic | 20.0% |
| !! | TCTTTAATGTGATTGTATTT+CGG | + | chr1.2:18286986-18287005 | MS.gene040877:intron | 20.0% |
| !! | TTACATATTGTGAAAAATCA+AGG | - | chr1.2:18286401-18286420 | None:intergenic | 20.0% |
| !! | TTTATCTTTGTCAACAAAAA+GGG | - | chr1.2:18287804-18287823 | None:intergenic | 20.0% |
| !!! | CTTTAAAAAAACCTACATAA+TGG | + | chr1.2:18287594-18287613 | MS.gene040877:intron | 20.0% |
| !!! | GAAGAGAATAATTTGAAATT+TGG | + | chr1.2:18287887-18287906 | MS.gene040877:CDS | 20.0% |
| !!! | TGAATTCTTATTTTTTTAGC+AGG | + | chr1.2:18287291-18287310 | MS.gene040877:intron | 20.0% |
| !!! | TTTGAATGAATCACAATTTT+TGG | + | chr1.2:18286939-18286958 | MS.gene040877:intron | 20.0% |
| !!! | TTTTTGTTGACAAAGATAAA+TGG | + | chr1.2:18287804-18287823 | MS.gene040877:CDS | 20.0% |
| !!! | TTTTTTATCTAACTATTGCA+GGG | + | chr1.2:18288176-18288195 | MS.gene040877:intron | 20.0% |
| !!! | TTTTTTTATCTAACTATTGC+AGG | + | chr1.2:18288175-18288194 | MS.gene040877:intron | 20.0% |
| ! | AAGTAGTTGTGATGATATTA+AGG | + | chr1.2:18287314-18287333 | MS.gene040877:CDS | 25.0% |
| ! | GAGAAAATAACAACTTGAAA+TGG | - | chr1.2:18287956-18287975 | None:intergenic | 25.0% |
| ! | TATATTTGATTAGTGTCCAT+CGG | + | chr1.2:18288017-18288036 | MS.gene040877:intron | 25.0% |
| ! | TGTGTCTTAACAAATTCATT+TGG | - | chr1.2:18287749-18287768 | None:intergenic | 25.0% |
| !! | AATGAAGTTATGTTTTGCAA+TGG | + | chr1.2:18286889-18286908 | MS.gene040877:intron | 25.0% |
| !! | AGAAGGGTTGTAAAATTTTA+TGG | + | chr1.2:18288140-18288159 | MS.gene040877:intron | 25.0% |
| !! | ATACCTTTTCACAAAACTTA+TGG | - | chr1.2:18286788-18286807 | None:intergenic | 25.0% |
| !! | TACCTTTTCACAAAACTTAT+GGG | - | chr1.2:18286787-18286806 | None:intergenic | 25.0% |
| !!! | ATGAAAACTCCTTATTTTGA+AGG | + | chr1.2:18287989-18288008 | MS.gene040877:CDS | 25.0% |
| !!! | TAAGTTTTGTGAAAAGGTAT+TGG | + | chr1.2:18286788-18286807 | MS.gene040877:CDS | 25.0% |
| !!! | TCAAGTTGTTATTTTCTCTT+TGG | + | chr1.2:18287958-18287977 | MS.gene040877:CDS | 25.0% |
| !!! | TGAATTTGTTAAGACACATA+TGG | + | chr1.2:18287751-18287770 | MS.gene040877:CDS | 25.0% |
| !!! | TGTTATTTTCTCTTTGGAAA+AGG | + | chr1.2:18287964-18287983 | MS.gene040877:CDS | 25.0% |
| AAAATCTTCAACACCATCTA+TGG | + | chr1.2:18287123-18287142 | MS.gene040877:CDS | 30.0% | |
| AATATAGCGAAGTCCAATTA+TGG | - | chr1.2:18287560-18287579 | None:intergenic | 30.0% | |
| GAAAAAATTCGACTCTGATA+AGG | + | chr1.2:18287368-18287387 | MS.gene040877:CDS | 30.0% | |
| GACGAATAACCTTAAAAAAG+TGG | - | chr1.2:18286329-18286348 | None:intergenic | 30.0% | |
| TTCTTACAAACTTCCATAGA+TGG | - | chr1.2:18287139-18287158 | None:intergenic | 30.0% | |
| ! | AAGTTATGTTTTGCAATGGT+TGG | + | chr1.2:18286893-18286912 | MS.gene040877:intron | 30.0% |
| ! | CTCTATCAATGTATGACTTT+TGG | - | chr1.2:18287413-18287432 | None:intergenic | 30.0% |
| ! | TACCAGTTTTTCTTCTTGAA+GGG | - | chr1.2:18286358-18286377 | None:intergenic | 30.0% |
| ! | TTACCAGTTTTTCTTCTTGA+AGG | - | chr1.2:18286359-18286378 | None:intergenic | 30.0% |
| !! | TGTGTTTTTGTGCTAAACAA+AGG | + | chr1.2:18287917-18287936 | MS.gene040877:CDS | 30.0% |
| !! | TTTGTGAAAAGGTATTGGAA+AGG | + | chr1.2:18286793-18286812 | MS.gene040877:CDS | 30.0% |
| !!! | CGAATTTTTTCTTCACTTTC+TGG | - | chr1.2:18287359-18287378 | None:intergenic | 30.0% |
| !!! | GGTGGAAAAGAAAGTTTTTT+GGG | + | chr1.2:18286852-18286871 | MS.gene040877:intron | 30.0% |
| !!! | TAATGGTGTCCACTTTTTTA+AGG | + | chr1.2:18286317-18286336 | MS.gene040877:CDS | 30.0% |
| !!! | TGGTGGAAAAGAAAGTTTTT+TGG | + | chr1.2:18286851-18286870 | MS.gene040877:intron | 30.0% |
| AAACAATCTGCACTAACTTG+TGG | + | chr1.2:18287848-18287867 | MS.gene040877:CDS | 35.0% | |
| AATGATTGTTCGAATATCGG+TGG | + | chr1.2:18286561-18286580 | MS.gene040877:intron | 35.0% | |
| ATACATTGATAGAGATCGCT+TGG | + | chr1.2:18287419-18287438 | MS.gene040877:CDS | 35.0% | |
| ATGTCTTCTCAAGAGAGTAA+TGG | + | chr1.2:18286300-18286319 | MS.gene040877:CDS | 35.0% | |
| CCAATCACAATCCATTATGT+AGG | - | chr1.2:18287608-18287627 | None:intergenic | 35.0% | |
| TAACAAACCCAGTTACTCTA+AGG | + | chr1.2:18286818-18286837 | MS.gene040877:CDS | 35.0% | |
| TAAGACACATATGGACATGA+TGG | + | chr1.2:18287760-18287779 | MS.gene040877:CDS | 35.0% | |
| TACCCTTCAAGAAGAAAAAC+TGG | + | chr1.2:18286353-18286372 | MS.gene040877:CDS | 35.0% | |
| TGATTGTATTTCGGTAGATG+CGG | + | chr1.2:18286995-18287014 | MS.gene040877:intron | 35.0% | |
| TTATCTAACTATTGCAGGGT+TGG | + | chr1.2:18288180-18288199 | MS.gene040877:intron | 35.0% | |
| TTGGAAACCTTAGAGTAACT+GGG | - | chr1.2:18286828-18286847 | None:intergenic | 35.0% | |
| TTTGGAAACCTTAGAGTAAC+TGG | - | chr1.2:18286829-18286848 | None:intergenic | 35.0% | |
| ! | ACTTTCTTTTCCACCATGTT+TGG | - | chr1.2:18286847-18286866 | None:intergenic | 35.0% |
| ! | TCTTCACTAGTTTCTCTTGA+CGG | - | chr1.2:18287037-18287056 | None:intergenic | 35.0% |
| !! | CCTACATAATGGATTGTGAT+TGG | + | chr1.2:18287605-18287624 | MS.gene040877:intron | 35.0% |
| !! | TACTCTAAGGTTTCCAAACA+TGG | + | chr1.2:18286831-18286850 | MS.gene040877:intron | 35.0% |
| !! | TGCCCATAAGTTTTGTGAAA+AGG | + | chr1.2:18286782-18286801 | MS.gene040877:CDS | 35.0% |
| TTGAGAACCCTTCATCATCA+CGG | + | chr1.2:18287089-18287108 | MS.gene040877:CDS | 40.0% | |
| ! | AATCTGCACTAACTTGTGGT+TGG | + | chr1.2:18287852-18287871 | MS.gene040877:CDS | 40.0% |
| ! | ACACATATGGACATGATGGA+AGG | + | chr1.2:18287764-18287783 | MS.gene040877:CDS | 40.0% |
| ! | CTTCACTAGTTTCTCTTGAC+GGG | - | chr1.2:18287036-18287055 | None:intergenic | 40.0% |
| ! | TCTAAGGTTTCCAAACATGG+TGG | + | chr1.2:18286834-18286853 | MS.gene040877:intron | 40.0% |
| !! | TTTTACCCCGTGATGATGAA+GGG | - | chr1.2:18287099-18287118 | None:intergenic | 40.0% |
| AAGCGTGAGCATGTGAACAA+TGG | + | chr1.2:18287193-18287212 | MS.gene040877:CDS | 45.0% | |
| CTTCATCATCACGGGGTAAA+AGG | + | chr1.2:18287098-18287117 | MS.gene040877:CDS | 45.0% | |
| GTGAGCATGTGAACAATGGT+TGG | + | chr1.2:18287197-18287216 | MS.gene040877:intron | 45.0% | |
| TGAGAACCCTTCATCATCAC+GGG | + | chr1.2:18287090-18287109 | MS.gene040877:CDS | 45.0% | |
| !! | CTTTTACCCCGTGATGATGA+AGG | - | chr1.2:18287100-18287119 | None:intergenic | 45.0% |
| GAGAACCCTTCATCATCACG+GGG | + | chr1.2:18287091-18287110 | MS.gene040877:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 18286300 | 18288207 | 18286300 | ID=MS.gene040877 |
| chr1.2 | mRNA | 18286300 | 18288207 | 18286300 | ID=MS.gene040877.t1;Parent=MS.gene040877 |
| chr1.2 | exon | 18286300 | 18286374 | 18286300 | ID=MS.gene040877.t1.exon1;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18286300 | 18286374 | 18286300 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| chr1.2 | exon | 18286778 | 18286839 | 18286778 | ID=MS.gene040877.t1.exon2;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18286778 | 18286839 | 18286778 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| chr1.2 | exon | 18287012 | 18287214 | 18287012 | ID=MS.gene040877.t1.exon3;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18287012 | 18287214 | 18287012 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| chr1.2 | exon | 18287313 | 18287440 | 18287313 | ID=MS.gene040877.t1.exon4;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18287313 | 18287440 | 18287313 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| chr1.2 | exon | 18287740 | 18288010 | 18287740 | ID=MS.gene040877.t1.exon5;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18287740 | 18288010 | 18287740 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| chr1.2 | exon | 18288197 | 18288207 | 18288197 | ID=MS.gene040877.t1.exon6;Parent=MS.gene040877.t1 |
| chr1.2 | CDS | 18288197 | 18288207 | 18288197 | ID=cds.MS.gene040877.t1;Parent=MS.gene040877.t1 |
| Gene Sequence |
| Protein sequence |
