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.gene05955.t1 | XP_003625515.1 | 99 | 99 | 1 | 0 | 1 | 99 | 1 | 99 | 2.50E-48 | 201.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05955.t1 | O82201 | 89.9 | 99 | 10 | 0 | 1 | 99 | 1 | 99 | 6.8e-47 | 187.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05955.t1 | G7L0L8 | 99.0 | 99 | 1 | 0 | 1 | 99 | 1 | 99 | 1.8e-48 | 201.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05955 | MS.gene06156 | 0.820968 | 5.18E-53 | -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.gene05955.t1 | MTR_7g100010 | 98.990 | 99 | 1 | 0 | 1 | 99 | 1 | 99 | 3.94e-69 | 203 |
| MS.gene05955.t1 | MTR_8g102180 | 98.990 | 99 | 1 | 0 | 1 | 99 | 1 | 99 | 3.94e-69 | 203 |
| MS.gene05955.t1 | MTR_5g098940 | 45.361 | 97 | 53 | 0 | 3 | 99 | 2 | 98 | 2.26e-27 | 98.2 |
| MS.gene05955.t1 | MTR_1g025190 | 51.546 | 97 | 47 | 0 | 3 | 99 | 2 | 98 | 9.39e-27 | 96.3 |
| MS.gene05955.t1 | MTR_5g087820 | 41.237 | 97 | 57 | 0 | 3 | 99 | 26 | 122 | 1.29e-22 | 86.7 |
| MS.gene05955.t1 | MTR_8g077600 | 37.736 | 106 | 53 | 3 | 3 | 99 | 2 | 103 | 2.03e-17 | 72.8 |
| MS.gene05955.t1 | MTR_8g077600 | 32.584 | 89 | 55 | 1 | 3 | 86 | 2 | 90 | 3.61e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05955.t1 | AT2G19790 | 89.899 | 99 | 10 | 0 | 1 | 99 | 1 | 99 | 2.40e-64 | 191 |
| MS.gene05955.t1 | AT1G47830 | 52.577 | 97 | 46 | 0 | 3 | 99 | 2 | 98 | 5.71e-27 | 96.7 |
| MS.gene05955.t1 | AT2G17380 | 45.361 | 97 | 53 | 0 | 3 | 99 | 2 | 98 | 1.60e-26 | 96.3 |
| MS.gene05955.t1 | AT4G35410 | 45.361 | 97 | 53 | 0 | 3 | 99 | 2 | 98 | 6.61e-26 | 92.8 |
| MS.gene05955.t1 | AT4G35410 | 45.361 | 97 | 53 | 0 | 3 | 99 | 2 | 98 | 3.74e-25 | 92.8 |
| MS.gene05955.t1 | AT3G50860 | 40.196 | 102 | 56 | 1 | 3 | 99 | 2 | 103 | 5.95e-22 | 84.0 |
| MS.gene05955.t1 | AT3G50860 | 40.196 | 102 | 56 | 1 | 3 | 99 | 2 | 103 | 7.16e-22 | 84.3 |
Find 17 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAGAATGAGCTTGCTATTT+TGG | 0.125124 | 4.2:-3041484 | MS.gene05955:intron |
| GAAACCATGGATCGACATTT+TGG | 0.210891 | 4.2:-3041441 | MS.gene05955:CDS |
| GGGGATCCGATTCGTGTTAA+TGG | 0.262612 | 4.2:-3042916 | MS.gene05955:CDS |
| GAAGAACGACGAACACTTGA+AGG | 0.412781 | 4.2:-3042840 | MS.gene05955:CDS |
| GCAACTACAAAATTATATAT+AGG | 0.415613 | 4.2:-3041874 | MS.gene05955:CDS |
| TGTTCACCATTAACACGAAT+CGG | 0.437301 | 4.2:+3042910 | None:intergenic |
| TTCATAATACTGAGCAAGAC+GGG | 0.525077 | 4.2:+3042875 | None:intergenic |
| TTCCTGGTTGGAGTTGATGA+CGG | 0.536130 | 4.2:-3041833 | MS.gene05955:CDS |
| CGCCGTCATCAACTCCAACC+AGG | 0.570939 | 4.2:+3041831 | None:intergenic |
| CCATGGTTTCGACTAAGAGA+TGG | 0.572456 | 4.2:+3041454 | None:intergenic |
| CCTCGCCCGTAATGAAAACC+AGG | 0.578527 | 4.2:-3042799 | MS.gene05955:intron |
| GTTGCCAAAATGTCGATCCA+TGG | 0.581731 | 4.2:+3041437 | None:intergenic |
| GTGTTAATGGTGAACAAACA+AGG | 0.589164 | 4.2:-3042903 | MS.gene05955:CDS |
| CCATCTCTTAGTCGAAACCA+TGG | 0.604583 | 4.2:-3041454 | MS.gene05955:CDS |
| ATTCATAATACTGAGCAAGA+CGG | 0.623435 | 4.2:+3042874 | None:intergenic |
| TTCGTCGTTCTTCAACAGTG+AGG | 0.697820 | 4.2:+3042850 | None:intergenic |
| GGTTGGAGTTGATGACGGCG+AGG | 0.701215 | 4.2:-3041828 | MS.gene05955:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAATAAAATCAATTTGTTT+TGG | + | chr4.2:3041877-3041896 | None:intergenic | 10.0% |
| !! | AAATTGGAAAGAAAAAAAAA+AGG | + | chr4.2:3042154-3042173 | None:intergenic | 15.0% |
| !! | ATGAAAATAAAAGAAAAGAA+TGG | + | chr4.2:3041586-3041605 | None:intergenic | 15.0% |
| !! | AAACAATGACAATATGAATT+AGG | + | chr4.2:3041641-3041660 | None:intergenic | 20.0% |
| !! | ATATTTATCTACAATGAAAG+TGG | + | chr4.2:3042789-3042808 | None:intergenic | 20.0% |
| !! | ATTTAAACATGTGATGAAAT+TGG | + | chr4.2:3042170-3042189 | None:intergenic | 20.0% |
| !! | GCAACTACAAAATTATATAT+AGG | - | chr4.2:3042478-3042497 | MS.gene05955:intron | 20.0% |
| !! | TATGAATTAGGTAAAATTGA+AGG | + | chr4.2:3041629-3041648 | None:intergenic | 20.0% |
| !!! | ATTCTAGTTGATTTATACAA+AGG | - | chr4.2:3042571-3042590 | MS.gene05955:intron | 20.0% |
| !!! | TGAATATTTTTACTATAGAC+AGG | - | chr4.2:3042015-3042034 | MS.gene05955:intron | 20.0% |
| ! | ATTAGGTAAAATTGAAGGTA+AGG | + | chr4.2:3041624-3041643 | None:intergenic | 25.0% |
| ! | TAAATAAGACATAGATGTCT+TGG | - | chr4.2:3041979-3041998 | MS.gene05955:intron | 25.0% |
| ! | TAGATTATATAATCTGTGAG+TGG | - | chr4.2:3042215-3042234 | MS.gene05955:intron | 25.0% |
| ! | TGTTTATTATTATTCAACCC+TGG | - | chr4.2:3041656-3041675 | MS.gene05955:intron | 25.0% |
| ! | TTGAATAATAAAGAATGACG+AGG | + | chr4.2:3042258-3042277 | None:intergenic | 25.0% |
| !!! | CACTGTGTTATATTTTAGTT+GGG | - | chr4.2:3042126-3042145 | MS.gene05955:intron | 25.0% |
| AGTAAGAGAAAGTCAAAAGA+TGG | + | chr4.2:3042333-3042352 | None:intergenic | 30.0% | |
| ATTCATAATACTGAGCAAGA+CGG | + | chr4.2:3041481-3041500 | None:intergenic | 30.0% | |
| ATTCTTTATTATTCAACCCG+AGG | - | chr4.2:3042262-3042281 | MS.gene05955:intron | 30.0% | |
| CCAACTAAAATATAACACAG+TGG | + | chr4.2:3042128-3042147 | None:intergenic | 30.0% | |
| GCATATTGTGTTAAATAGTC+TGG | - | chr4.2:3042614-3042633 | MS.gene05955:intron | 30.0% | |
| GGTTTATACCAGAAACATAA+GGG | - | chr4.2:3042367-3042386 | MS.gene05955:intron | 30.0% | |
| TATAGACAGGAGATAATTGT+TGG | - | chr4.2:3042028-3042047 | MS.gene05955:intron | 30.0% | |
| TGAGTGGAATGAAATTGAAA+TGG | - | chr4.2:3042231-3042250 | MS.gene05955:intron | 30.0% | |
| TGGTTTATACCAGAAACATA+AGG | - | chr4.2:3042366-3042385 | MS.gene05955:intron | 30.0% | |
| TTAACAAGACTAAGAACTTC+AGG | + | chr4.2:3042735-3042754 | None:intergenic | 30.0% | |
| TTATTATTATTCAACCCTGG+AGG | - | chr4.2:3041659-3041678 | MS.gene05955:intron | 30.0% | |
| TTTCATAATCTATCATGGAG+AGG | + | chr4.2:3041831-3041850 | None:intergenic | 30.0% | |
| ! | CATAAACACTTCTGAGAATA+TGG | - | chr4.2:3041757-3041776 | MS.gene05955:intron | 30.0% |
| ! | CTAGTTGATTTATACAAAGG+CGG | - | chr4.2:3042574-3042593 | MS.gene05955:intron | 30.0% |
| ! | GCTGATTTCATAATCTATCA+TGG | + | chr4.2:3041836-3041855 | None:intergenic | 30.0% |
| !! | AACATACCTGGTTTTCATTA+CGG | + | chr4.2:3041562-3041581 | None:intergenic | 30.0% |
| !!! | CCACTGTGTTATATTTTAGT+TGG | - | chr4.2:3042125-3042144 | MS.gene05955:intron | 30.0% |
| AAGTCAATCCCTTATGTTTC+TGG | + | chr4.2:3042378-3042397 | None:intergenic | 35.0% | |
| AATCTATCATGGAGAGGTTA+TGG | + | chr4.2:3041825-3041844 | None:intergenic | 35.0% | |
| AGCAAACTTGAATCCAAAGA+TGG | + | chr4.2:3042295-3042314 | None:intergenic | 35.0% | |
| AGGTAAAATTGAAGGTAAGG+AGG | + | chr4.2:3041621-3041640 | None:intergenic | 35.0% | |
| GAAAAGAATGGAAACATACC+TGG | + | chr4.2:3041574-3041593 | None:intergenic | 35.0% | |
| GTGTTAATGGTGAACAAACA+AGG | - | chr4.2:3041449-3041468 | MS.gene05955:CDS | 35.0% | |
| TCTACAATGAAAGTGGTACA+TGG | + | chr4.2:3042782-3042801 | None:intergenic | 35.0% | |
| TCTTACTCATATTGATGCGT+TGG | - | chr4.2:3042346-3042365 | MS.gene05955:intron | 35.0% | |
| TGTTCACCATTAACACGAAT+CGG | + | chr4.2:3041445-3041464 | None:intergenic | 35.0% | |
| TTCATAATACTGAGCAAGAC+GGG | + | chr4.2:3041480-3041499 | None:intergenic | 35.0% | |
| ! | ATTATTCAACCCGAGGTTTT+AGG | - | chr4.2:3042269-3042288 | MS.gene05955:intron | 35.0% |
| ! | TGGCTGATACATTTTTGTCA+TGG | - | chr4.2:3042432-3042451 | MS.gene05955:intron | 35.0% |
| !! | ACATACCTGGTTTTCATTAC+GGG | + | chr4.2:3041561-3041580 | None:intergenic | 35.0% |
| !!! | CTATGCATCTTTGTTTTTCC+TGG | - | chr4.2:3042503-3042522 | MS.gene05955:intron | 35.0% |
| AAAAGATGGCCTAAAACCTC+GGG | + | chr4.2:3042319-3042338 | None:intergenic | 40.0% | |
| AACTTTCTCTTCCCCAATTC+TGG | + | chr4.2:3042067-3042086 | None:intergenic | 40.0% | |
| ACTTTCTCTTCCCCAATTCT+GGG | + | chr4.2:3042066-3042085 | None:intergenic | 40.0% | |
| AGTGGTCATCACTATGTGAT+CGG | - | chr4.2:3042654-3042673 | MS.gene05955:intron | 40.0% | |
| CAAAAGATGGCCTAAAACCT+CGG | + | chr4.2:3042320-3042339 | None:intergenic | 40.0% | |
| CAATCTAATTGCTACCTCCA+GGG | + | chr4.2:3041676-3041695 | None:intergenic | 40.0% | |
| CCAGTTTCTTTAGACAAGCA+AGG | + | chr4.2:3042685-3042704 | None:intergenic | 40.0% | |
| CCTTGCTTGTCTAAAGAAAC+TGG | - | chr4.2:3042682-3042701 | MS.gene05955:intron | 40.0% | |
| TCAATCTAATTGCTACCTCC+AGG | + | chr4.2:3041677-3041696 | None:intergenic | 40.0% | |
| TCTGCAAAATTGTCGACAGA+AGG | + | chr4.2:3042853-3042872 | None:intergenic | 40.0% | |
| TGTATCAGCCAGATGAATCA+TGG | + | chr4.2:3042423-3042442 | None:intergenic | 40.0% | |
| TTCCTTTCACACCCAGAATT+GGG | - | chr4.2:3042052-3042071 | MS.gene05955:intron | 40.0% | |
| TTTCCTTTCACACCCAGAAT+TGG | - | chr4.2:3042051-3042070 | MS.gene05955:intron | 40.0% | |
| ! | GAAACCATGGATCGACATTT+TGG | - | chr4.2:3042911-3042930 | MS.gene05955:CDS | 40.0% |
| !!! | GCAGAATGAGCTTGCTATTT+TGG | - | chr4.2:3042868-3042887 | MS.gene05955:CDS | 40.0% |
| !!! | GCATCTTTGTTTTTCCTGGT+TGG | - | chr4.2:3042507-3042526 | MS.gene05955:intron | 40.0% |
| CAAAGATGGCCTAAAACCTC+GGG | + | chr4.2:3042281-3042300 | None:intergenic | 45.0% | |
| CCAAAGATGGCCTAAAACCT+CGG | + | chr4.2:3042282-3042301 | None:intergenic | 45.0% | |
| CCATCTCTTAGTCGAAACCA+TGG | - | chr4.2:3042898-3042917 | MS.gene05955:CDS | 45.0% | |
| CCATGGTTTCGACTAAGAGA+TGG | + | chr4.2:3042901-3042920 | None:intergenic | 45.0% | |
| GAAGAACGACGAACACTTGA+AGG | - | chr4.2:3041512-3041531 | MS.gene05955:intron | 45.0% | |
| GATCACATAGTGATGACCAC+TGG | + | chr4.2:3042655-3042674 | None:intergenic | 45.0% | |
| GCTTTGATCTTACTGACCAG+TGG | - | chr4.2:3042636-3042655 | MS.gene05955:intron | 45.0% | |
| GTTGCCAAAATGTCGATCCA+TGG | + | chr4.2:3042918-3042937 | None:intergenic | 45.0% | |
| TCCTTTCACACCCAGAATTG+GGG | - | chr4.2:3042053-3042072 | MS.gene05955:intron | 45.0% | |
| TCTGCTCACCATGATTCATC+TGG | - | chr4.2:3042412-3042431 | MS.gene05955:intron | 45.0% | |
| TTCGTCGTTCTTCAACAGTG+AGG | + | chr4.2:3041505-3041524 | None:intergenic | 45.0% | |
| !! | TTCCTGGTTGGAGTTGATGA+CGG | - | chr4.2:3042519-3042538 | MS.gene05955:intron | 45.0% |
| !!! | AGTTTGCTACCCGAGGTTTT+AGG | - | chr4.2:3042307-3042326 | MS.gene05955:intron | 45.0% |
| TCCCCAATTCTGGGTGTGAA+AGG | + | chr4.2:3042057-3042076 | None:intergenic | 50.0% | |
| ! | GGGGATCCGATTCGTGTTAA+TGG | - | chr4.2:3041436-3041455 | MS.gene05955:CDS | 50.0% |
| !! | GGATTCAAGTTTGCTACCCG+AGG | - | chr4.2:3042300-3042319 | MS.gene05955:intron | 50.0% |
| !!! | CCGAGGTTTTAGGCCATCTT+TGG | - | chr4.2:3042279-3042298 | MS.gene05955:intron | 50.0% |
| CCTCGCCCGTAATGAAAACC+AGG | - | chr4.2:3041553-3041572 | MS.gene05955:intron | 55.0% | |
| !! | CCTGGTTTTCATTACGGGCG+AGG | + | chr4.2:3041556-3041575 | None:intergenic | 55.0% |
| CGCCGTCATCAACTCCAACC+AGG | + | chr4.2:3042524-3042543 | None:intergenic | 60.0% | |
| !! | GGTTGGAGTTGATGACGGCG+AGG | - | chr4.2:3042524-3042543 | MS.gene05955:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 3041434 | 3042940 | 3041434 | ID=MS.gene05955 |
| chr4.2 | mRNA | 3041434 | 3042940 | 3041434 | ID=MS.gene05955.t1;Parent=MS.gene05955 |
| chr4.2 | exon | 3042800 | 3042940 | 3042800 | ID=MS.gene05955.t1.exon1;Parent=MS.gene05955.t1 |
| chr4.2 | CDS | 3042800 | 3042940 | 3042800 | ID=cds.MS.gene05955.t1;Parent=MS.gene05955.t1 |
| chr4.2 | exon | 3041829 | 3041915 | 3041829 | ID=MS.gene05955.t1.exon2;Parent=MS.gene05955.t1 |
| chr4.2 | CDS | 3041829 | 3041915 | 3041829 | ID=cds.MS.gene05955.t1;Parent=MS.gene05955.t1 |
| chr4.2 | exon | 3041434 | 3041502 | 3041434 | ID=MS.gene05955.t1.exon3;Parent=MS.gene05955.t1 |
| chr4.2 | CDS | 3041434 | 3041502 | 3041434 | ID=cds.MS.gene05955.t1;Parent=MS.gene05955.t1 |
| Gene Sequence |
| Protein sequence |
