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.gene62387.t1 | KEH25543.1 | 84.2 | 95 | 8 | 1 | 1 | 95 | 1 | 88 | 8.80E-35 | 156 |
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.gene62387.t1 | A0A072U8W6 | 84.2 | 95 | 8 | 1 | 1 | 95 | 1 | 88 | 6.3e-35 | 156.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051019 | MS.gene62387 | 0.803733 | 3.03E-49 | -1.69E-46 |
| MS.gene057102 | MS.gene62387 | 0.821188 | 4.61E-53 | -1.69E-46 |
| MS.gene057132 | MS.gene62387 | 0.800153 | 1.65E-48 | -1.69E-46 |
| MS.gene05985 | MS.gene62387 | -0.814224 | 1.72E-51 | -1.69E-46 |
| MS.gene060338 | MS.gene62387 | 0.804809 | 1.81E-49 | -1.69E-46 |
| MS.gene061188 | MS.gene62387 | 0.833601 | 4.86E-56 | -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.gene62387.t1 | MTR_6g027480 | 84.211 | 95 | 8 | 1 | 1 | 95 | 1 | 88 | 2.27e-53 | 161 |
| MS.gene62387.t1 | MTR_7g086770 | 50.649 | 77 | 33 | 2 | 17 | 92 | 20 | 92 | 1.35e-15 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAACCACTCCCAGGGGATTT+TGG | 0.070443 | 6.4:-2229882 | None:intergenic |
| GATGGGAAGAAGGGTCAATT+TGG | 0.296094 | 6.4:+2229815 | MS.gene62387:CDS |
| GGTTCATTGATGTTGGAAAA+AGG | 0.327022 | 6.4:+2229759 | MS.gene62387:CDS |
| CACCAGGCCCTTCATAATCA+TGG | 0.396641 | 6.4:-2229842 | None:intergenic |
| TTGGAACTCCATGATTATGA+AGG | 0.463143 | 6.4:+2229834 | MS.gene62387:CDS |
| ATGAAAGATTGATGGGAAGA+AGG | 0.472148 | 6.4:+2229805 | MS.gene62387:CDS |
| TGAAAGATTGATGGGAAGAA+GGG | 0.490161 | 6.4:+2229806 | MS.gene62387:CDS |
| ACATATGGATGAAAGATTGA+TGG | 0.490804 | 6.4:+2229797 | MS.gene62387:CDS |
| TTATGTTCTTTATTTGCACC+AGG | 0.490997 | 6.4:-2229858 | None:intergenic |
| GCACTAACCTTATATAAAGA+AGG | 0.507798 | 6.4:-2228902 | None:intergenic |
| CTCCATGATTATGAAGGGCC+TGG | 0.512793 | 6.4:+2229840 | MS.gene62387:CDS |
| GGAACATGGTTCATTGATGT+TGG | 0.518756 | 6.4:+2229752 | MS.gene62387:intron |
| CATATGGATGAAAGATTGAT+GGG | 0.518975 | 6.4:+2229798 | MS.gene62387:CDS |
| GAACATAACCCAAAATCCCC+TGG | 0.526511 | 6.4:+2229873 | MS.gene62387:CDS |
| AACCCAAAATCCCCTGGGAG+TGG | 0.548305 | 6.4:+2229879 | MS.gene62387:CDS |
| TTTGCACATCAACCACTCCC+AGG | 0.556615 | 6.4:-2229891 | None:intergenic |
| TGGAACTCCATGATTATGAA+GGG | 0.574524 | 6.4:+2229835 | MS.gene62387:CDS |
| TTGCACATCAACCACTCCCA+GGG | 0.587694 | 6.4:-2229890 | None:intergenic |
| AACATAACCCAAAATCCCCT+GGG | 0.609618 | 6.4:+2229874 | MS.gene62387:CDS |
| TTGCAGGGATAGCAAAGACA+TGG | 0.624053 | 6.4:-2228752 | None:intergenic |
| TGCACATCAACCACTCCCAG+GGG | 0.679834 | 6.4:-2229889 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACATATCAATATACATATT+TGG | - | chr6.4:2228822-2228841 | None:intergenic | 15.0% |
| !! | ACATGTTTAATAACAAAAAT+GGG | + | chr6.4:2229523-2229542 | MS.gene62387:intron | 15.0% |
| !! | TGTATATAAATACTACAATT+TGG | + | chr6.4:2229635-2229654 | MS.gene62387:intron | 15.0% |
| !!! | ATATGTTGAATTGATTTTTA+TGG | + | chr6.4:2228835-2228854 | MS.gene62387:intron | 15.0% |
| !!! | GTTGACAATTTAATTTATTT+TGG | + | chr6.4:2229701-2229720 | MS.gene62387:intron | 15.0% |
| !! | CACATGTTTAATAACAAAAA+TGG | + | chr6.4:2229522-2229541 | MS.gene62387:intron | 20.0% |
| !! | TGTATATGTATATCACTATA+TGG | - | chr6.4:2229081-2229100 | None:intergenic | 20.0% |
| !! | TTTCTTTATTCTTTCTGAAT+CGG | - | chr6.4:2229482-2229501 | None:intergenic | 20.0% |
| !!! | AAAATTTTACAAAGGAAATG+AGG | + | chr6.4:2229162-2229181 | MS.gene62387:intron | 20.0% |
| !!! | AATTGTTTGTTTTGTGTATT+TGG | + | chr6.4:2229053-2229072 | MS.gene62387:intron | 20.0% |
| !!! | AGTTTTTCCTTCTTTATATA+AGG | + | chr6.4:2228895-2228914 | MS.gene62387:CDS | 20.0% |
| !!! | TCATTTCCTTTGTAAAATTT+TGG | - | chr6.4:2229163-2229182 | None:intergenic | 20.0% |
| ! | TCAATATCTAAGGAAAATTG+AGG | + | chr6.4:2228999-2229018 | MS.gene62387:intron | 25.0% |
| ! | TGAAAAAATGATGGTACATA+TGG | + | chr6.4:2229782-2229801 | MS.gene62387:CDS | 25.0% |
| ! | TTCTTTATTCTTTCTGAATC+GGG | - | chr6.4:2229481-2229500 | None:intergenic | 25.0% |
| ! | TTGTATTATGATTCGAAACT+GGG | + | chr6.4:2229590-2229609 | MS.gene62387:intron | 25.0% |
| !! | AATTTTCCTTAGATATTGAG+GGG | - | chr6.4:2228998-2229017 | None:intergenic | 25.0% |
| !! | ATCTTCACCATTCAAATTTT+TGG | - | chr6.4:2228870-2228889 | None:intergenic | 25.0% |
| !! | CAATTTTCCTTAGATATTGA+GGG | - | chr6.4:2228999-2229018 | None:intergenic | 25.0% |
| !! | TCAATTTTCCTTAGATATTG+AGG | - | chr6.4:2229000-2229019 | None:intergenic | 25.0% |
| !! | TCATTATTTGCATGTTTTGT+AGG | + | chr6.4:2229731-2229750 | MS.gene62387:intron | 25.0% |
| !! | TGACAACCAAAATTTTACAA+AGG | + | chr6.4:2229154-2229173 | MS.gene62387:intron | 25.0% |
| !! | TTCCTAATTTTGCAAATTCA+TGG | + | chr6.4:2228951-2228970 | MS.gene62387:intron | 25.0% |
| !!! | GAATTGATTTTTATGGTTGT+AGG | + | chr6.4:2228842-2228861 | MS.gene62387:intron | 25.0% |
| AAATTCATGGTCATGTATGT+TGG | + | chr6.4:2228964-2228983 | MS.gene62387:intron | 30.0% | |
| AATTGCAACAACTTTGTAGT+CGG | - | chr6.4:2229567-2229586 | None:intergenic | 30.0% | |
| ACATATGGATGAAAGATTGA+TGG | + | chr6.4:2229797-2229816 | MS.gene62387:CDS | 30.0% | |
| CACAAAAGTTGTCACATATA+TGG | - | chr6.4:2229136-2229155 | None:intergenic | 30.0% | |
| CATATGGATGAAAGATTGAT+GGG | + | chr6.4:2229798-2229817 | MS.gene62387:CDS | 30.0% | |
| CTTGTATTATGATTCGAAAC+TGG | + | chr6.4:2229589-2229608 | MS.gene62387:intron | 30.0% | |
| GACCATGAATTTGCAAAATT+AGG | - | chr6.4:2228956-2228975 | None:intergenic | 30.0% | |
| GCACTAACCTTATATAAAGA+AGG | - | chr6.4:2228905-2228924 | None:intergenic | 30.0% | |
| GGAAAAAGGTGAAAAAATGA+TGG | + | chr6.4:2229773-2229792 | MS.gene62387:CDS | 30.0% | |
| GTAGGAACCAAAAATTTGAA+TGG | + | chr6.4:2228860-2228879 | MS.gene62387:intron | 30.0% | |
| TCTTTATTCTTTCTGAATCG+GGG | - | chr6.4:2229480-2229499 | None:intergenic | 30.0% | |
| TTACTTTCTCTCTATTGCTT+AGG | - | chr6.4:2229202-2229221 | None:intergenic | 30.0% | |
| ! | AGGTTAGTGCTTCTTAATTT+TGG | + | chr6.4:2228915-2228934 | MS.gene62387:intron | 30.0% |
| ! | ATTTTCCTTAGATATTGAGG+GGG | - | chr6.4:2228997-2229016 | None:intergenic | 30.0% |
| ! | TTATGTTCTTTATTTGCACC+AGG | - | chr6.4:2229861-2229880 | None:intergenic | 30.0% |
| ATGAAAGATTGATGGGAAGA+AGG | + | chr6.4:2229805-2229824 | MS.gene62387:CDS | 35.0% | |
| CAACAATTGTGTCAAGCATA+AGG | + | chr6.4:2229328-2229347 | MS.gene62387:intron | 35.0% | |
| GGTTCATTGATGTTGGAAAA+AGG | + | chr6.4:2229759-2229778 | MS.gene62387:CDS | 35.0% | |
| TGAAAGATTGATGGGAAGAA+GGG | + | chr6.4:2229806-2229825 | MS.gene62387:CDS | 35.0% | |
| TGGAACTCCATGATTATGAA+GGG | + | chr6.4:2229835-2229854 | MS.gene62387:CDS | 35.0% | |
| TTGGAACTCCATGATTATGA+AGG | + | chr6.4:2229834-2229853 | MS.gene62387:CDS | 35.0% | |
| ! | CAAAAACCTTACTTGTTGCA+GGG | - | chr6.4:2228770-2228789 | None:intergenic | 35.0% |
| ! | TCAAAAACCTTACTTGTTGC+AGG | - | chr6.4:2228771-2228790 | None:intergenic | 35.0% |
| ! | TTGCATGTTTTGTAGGAACA+TGG | + | chr6.4:2229738-2229757 | MS.gene62387:intron | 35.0% |
| ! | TTTTTCCCCCTCAATATCTA+AGG | + | chr6.4:2228989-2229008 | MS.gene62387:intron | 35.0% |
| AACATAACCCAAAATCCCCT+GGG | + | chr6.4:2229874-2229893 | MS.gene62387:CDS | 40.0% | |
| ATACAAGTTGTACACAGCCA+CGG | - | chr6.4:2229620-2229639 | None:intergenic | 40.0% | |
| GGAACATGGTTCATTGATGT+TGG | + | chr6.4:2229752-2229771 | MS.gene62387:intron | 40.0% | |
| ATTCGAAACTGGGTTAACCG+TGG | + | chr6.4:2229600-2229619 | MS.gene62387:intron | 45.0% | |
| GAACATAACCCAAAATCCCC+TGG | + | chr6.4:2229873-2229892 | MS.gene62387:CDS | 45.0% | |
| GATGGGAAGAAGGGTCAATT+TGG | + | chr6.4:2229815-2229834 | MS.gene62387:CDS | 45.0% | |
| TGCAACAACTTTGTAGTCGG+AGG | - | chr6.4:2229564-2229583 | None:intergenic | 45.0% | |
| TGCTATCCCTGCAACAAGTA+AGG | + | chr6.4:2228761-2228780 | MS.gene62387:intron | 45.0% | |
| TTGCAGGGATAGCAAAGACA+TGG | - | chr6.4:2228755-2228774 | None:intergenic | 45.0% | |
| CACCAGGCCCTTCATAATCA+TGG | - | chr6.4:2229845-2229864 | None:intergenic | 50.0% | |
| CTCCATGATTATGAAGGGCC+TGG | + | chr6.4:2229840-2229859 | MS.gene62387:CDS | 50.0% | |
| ! | AACCACTCCCAGGGGATTTT+GGG | - | chr6.4:2229884-2229903 | None:intergenic | 50.0% |
| AACCCAAAATCCCCTGGGAG+TGG | + | chr6.4:2229879-2229898 | MS.gene62387:CDS | 55.0% | |
| ! | CAACCACTCCCAGGGGATTT+TGG | - | chr6.4:2229885-2229904 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 2228696 | 2229905 | 2228696 | ID=MS.gene62387 |
| chr6.4 | mRNA | 2228696 | 2229905 | 2228696 | ID=MS.gene62387.t1;Parent=MS.gene62387 |
| chr6.4 | exon | 2228696 | 2228777 | 2228696 | ID=MS.gene62387.t1.exon1;Parent=MS.gene62387.t1 |
| chr6.4 | CDS | 2228696 | 2228777 | 2228696 | ID=cds.MS.gene62387.t1;Parent=MS.gene62387.t1 |
| chr6.4 | exon | 2228864 | 2228916 | 2228864 | ID=MS.gene62387.t1.exon2;Parent=MS.gene62387.t1 |
| chr6.4 | CDS | 2228864 | 2228916 | 2228864 | ID=cds.MS.gene62387.t1;Parent=MS.gene62387.t1 |
| chr6.4 | exon | 2229753 | 2229905 | 2229753 | ID=MS.gene62387.t1.exon3;Parent=MS.gene62387.t1 |
| chr6.4 | CDS | 2229753 | 2229905 | 2229753 | ID=cds.MS.gene62387.t1;Parent=MS.gene62387.t1 |
| Gene Sequence |
| Protein sequence |
