Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180002279.01.T01 | XP_013442371.1 | 96.721 | 61 | 2 | 0 | 1 | 61 | 168 | 228 | 8.75E-33 | 124 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180002279.01.T01 | A0A072TGV7 | 96.721 | 61 | 2 | 0 | 1 | 61 | 168 | 228 | 4.18e-33 | 124 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0180002278.01 | MsG0180002279.01 | 0.935078 | 1.491601e-96 | 1.175961e-91 |
| MsG0180002279.01 | MsG0480021375.01 | 0.805264 | 1.451544e-49 | 7.644927e-47 |
| MsG0180002279.01 | MsG0480022355.01 | 0.807848 | 4.136804e-50 | 2.328779e-47 |
| MsG0180002279.01 | MsG0580027655.01 | 0.824724 | 6.912024e-54 | 6.173840e-51 |
| MsG0180002279.01 | MsG0580027826.01 | 0.826054 | 3.348183e-54 | 3.105875e-51 |
| MsG0180002279.01 | MsG0680034064.01 | 0.800188 | 1.620504e-48 | 7.497664e-46 |
| MsG0180002279.01 | MsG0780038948.01 | 0.908031 | 2.664974e-81 | 4.852482e-77 |
| MsG0180002279.01 | MsG0780040430.01 | 0.805765 | 1.140046e-49 | 6.082579e-47 |
| MsG0180002279.01 | MsG0780040431.01 | 0.803277 | 3.763687e-49 | 1.883524e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180002279.01.T01 | MTR_0197s0010 | 96.721 | 61 | 2 | 0 | 1 | 61 | 168 | 228 | 1.06e-36 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTCACAAGACCGACTTTAT+TGG | 0.239183 | 1:-36173312 | None:intergenic |
| TTAGATATGGATTTGTATAA+TGG | 0.262692 | 1:+36173133 | MsG0180002279.01.T01:CDS |
| CCTAAAACTGGTTAGTAATA+TGG | 0.288054 | 1:+36173345 | MsG0180002279.01.T01:three_prime_UTR |
| GGAGGATTTGCTCTTAGATA+TGG | 0.316126 | 1:+36173120 | MsG0180002279.01.T01:CDS |
| ATCATTGCCTTCCGGCCTAT+TGG | 0.348089 | 1:-36173181 | None:intergenic |
| GTAGTAGTAGCCAATGGAAT+TGG | 0.379589 | 1:+36173098 | MsG0180002279.01.T01:CDS |
| CGATTAAGCTACCATTTCCT+TGG | 0.394976 | 1:-36173250 | None:intergenic |
| CAATGATAATCTCTAAATCT+TGG | 0.416480 | 1:+36173197 | MsG0180002279.01.T01:CDS |
| GTCAATGTTATCCAAGGAAA+TGG | 0.421861 | 1:+36173239 | MsG0180002279.01.T01:CDS |
| TTATTGTCCCTCTTGCCAAT+AGG | 0.433960 | 1:+36173166 | MsG0180002279.01.T01:CDS |
| TAGAGATTATCATTGCCTTC+CGG | 0.434675 | 1:-36173189 | None:intergenic |
| GGATTTGAAGCTATGGTAAG+TGG | 0.449933 | 1:+36173067 | MsG0180002279.01.T01:CDS |
| TAGTAGTAGCCAATGGAATT+GGG | 0.454217 | 1:+36173099 | MsG0180002279.01.T01:CDS |
| CCTTCTAATTGAAAATCCAT+TGG | 0.479698 | 1:-36173046 | None:intergenic |
| ATTAGAAGGATTTGAAGCTA+TGG | 0.483623 | 1:+36173060 | MsG0180002279.01.T01:CDS |
| GACCGACTTAGCCCTAAAAC+TGG | 0.509527 | 1:+36173333 | MsG0180002279.01.T01:three_prime_UTR |
| CATGATGATGTATTCATGCT+TGG | 0.512087 | 1:+36172997 | MsG0180002279.01.T01:CDS |
| AGCTATGGTAAGTGGAGAAG+AGG | 0.512362 | 1:+36173075 | MsG0180002279.01.T01:CDS |
| ATGCTTGGACCAACAAGGTA+TGG | 0.517260 | 1:+36173012 | MsG0180002279.01.T01:CDS |
| GCTATGGTAAGTGGAGAAGA+GGG | 0.520948 | 1:+36173076 | MsG0180002279.01.T01:CDS |
| ACTCACCAACCATACCTTGT+TGG | 0.533165 | 1:-36173021 | None:intergenic |
| TTTAAATAAACCAATAAAGT+CGG | 0.540827 | 1:+36173302 | MsG0180002279.01.T01:three_prime_UTR |
| TGTCCCTCTTGCCAATAGGC+CGG | 0.549628 | 1:+36173170 | MsG0180002279.01.T01:CDS |
| TATGGTTGGTGAGTTTCCAA+TGG | 0.550568 | 1:+36173030 | MsG0180002279.01.T01:CDS |
| GCAAATCCTCCCAATTCCAT+TGG | 0.571731 | 1:-36173108 | None:intergenic |
| TCAAAGGTCAATGTTATCCA+AGG | 0.580395 | 1:+36173233 | MsG0180002279.01.T01:CDS |
| CTTCCGGCCTATTGGCAAGA+GGG | 0.583088 | 1:-36173173 | None:intergenic |
| TGGTTGTGTATCAATATCAA+AGG | 0.596651 | 1:+36173217 | MsG0180002279.01.T01:CDS |
| AAGAGGGTAGTAGTAGCCAA+TGG | 0.596813 | 1:+36173092 | MsG0180002279.01.T01:CDS |
| CCTTCCGGCCTATTGGCAAG+AGG | 0.620403 | 1:-36173174 | None:intergenic |
| CCTCTTGCCAATAGGCCGGA+AGG | 0.628177 | 1:+36173174 | MsG0180002279.01.T01:CDS |
| TATTCATGCTTGGACCAACA+AGG | 0.644707 | 1:+36173007 | MsG0180002279.01.T01:CDS |
| TTGGACCAACAAGGTATGGT+TGG | 0.660368 | 1:+36173016 | MsG0180002279.01.T01:CDS |
| TAGTAGCCAATGGAATTGGG+AGG | 0.680463 | 1:+36173102 | MsG0180002279.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAATAAACCAATAAAGT+CGG | + | Chr1:36173302-36173321 | MsG0180002279.01.T01:three_prime_UTR | 15.0% |
| !! | TTAGATATGGATTTGTATAA+TGG | + | Chr1:36173133-36173152 | MsG0180002279.01.T01:CDS | 20.0% |
| ! | CAATGATAATCTCTAAATCT+TGG | + | Chr1:36173197-36173216 | MsG0180002279.01.T01:CDS | 25.0% |
| !! | CATATTACTAACCAGTTTTA+GGG | - | Chr1:36173347-36173366 | None:intergenic | 25.0% |
| CCTAAAACTGGTTAGTAATA+TGG | + | Chr1:36173345-36173364 | MsG0180002279.01.T01:three_prime_UTR | 30.0% | |
| CCTTCTAATTGAAAATCCAT+TGG | - | Chr1:36173049-36173068 | None:intergenic | 30.0% | |
| TGGTTGTGTATCAATATCAA+AGG | + | Chr1:36173217-36173236 | MsG0180002279.01.T01:CDS | 30.0% | |
| ! | ATTAGAAGGATTTGAAGCTA+TGG | + | Chr1:36173060-36173079 | MsG0180002279.01.T01:CDS | 30.0% |
| ! | CCATATTACTAACCAGTTTT+AGG | - | Chr1:36173348-36173367 | None:intergenic | 30.0% |
| !! | CCAATGGATTTTCAATTAGA+AGG | + | Chr1:36173046-36173065 | MsG0180002279.01.T01:CDS | 30.0% |
| GTCAATGTTATCCAAGGAAA+TGG | + | Chr1:36173239-36173258 | MsG0180002279.01.T01:CDS | 35.0% | |
| TAGAGATTATCATTGCCTTC+CGG | - | Chr1:36173192-36173211 | None:intergenic | 35.0% | |
| TAGTAGTAGCCAATGGAATT+GGG | + | Chr1:36173099-36173118 | MsG0180002279.01.T01:CDS | 35.0% | |
| TCAAAGGTCAATGTTATCCA+AGG | + | Chr1:36173233-36173252 | MsG0180002279.01.T01:CDS | 35.0% | |
| ! | CATGATGATGTATTCATGCT+TGG | + | Chr1:36172997-36173016 | MsG0180002279.01.T01:CDS | 35.0% |
| CGATTAAGCTACCATTTCCT+TGG | - | Chr1:36173253-36173272 | None:intergenic | 40.0% | |
| GTAGTAGTAGCCAATGGAAT+TGG | + | Chr1:36173098-36173117 | MsG0180002279.01.T01:CDS | 40.0% | |
| TATTCATGCTTGGACCAACA+AGG | + | Chr1:36173007-36173026 | MsG0180002279.01.T01:CDS | 40.0% | |
| TTATTGTCCCTCTTGCCAAT+AGG | + | Chr1:36173166-36173185 | MsG0180002279.01.T01:CDS | 40.0% | |
| ! | GGAGGATTTGCTCTTAGATA+TGG | + | Chr1:36173120-36173139 | MsG0180002279.01.T01:CDS | 40.0% |
| ! | GGATTTGAAGCTATGGTAAG+TGG | + | Chr1:36173067-36173086 | MsG0180002279.01.T01:CDS | 40.0% |
| ! | TCTCACAAGACCGACTTTAT+TGG | - | Chr1:36173315-36173334 | None:intergenic | 40.0% |
| !! | TATGGTTGGTGAGTTTCCAA+TGG | + | Chr1:36173030-36173049 | MsG0180002279.01.T01:CDS | 40.0% |
| !!! | AACCAGTTTTAGGGCTAAGT+CGG | - | Chr1:36173338-36173357 | None:intergenic | 40.0% |
| AAGAGGGTAGTAGTAGCCAA+TGG | + | Chr1:36173092-36173111 | MsG0180002279.01.T01:CDS | 45.0% | |
| ACTCACCAACCATACCTTGT+TGG | - | Chr1:36173024-36173043 | None:intergenic | 45.0% | |
| AGCTATGGTAAGTGGAGAAG+AGG | + | Chr1:36173075-36173094 | MsG0180002279.01.T01:CDS | 45.0% | |
| ATGCTTGGACCAACAAGGTA+TGG | + | Chr1:36173012-36173031 | MsG0180002279.01.T01:CDS | 45.0% | |
| GCAAATCCTCCCAATTCCAT+TGG | - | Chr1:36173111-36173130 | None:intergenic | 45.0% | |
| GCTATGGTAAGTGGAGAAGA+GGG | + | Chr1:36173076-36173095 | MsG0180002279.01.T01:CDS | 45.0% | |
| TAGTAGCCAATGGAATTGGG+AGG | + | Chr1:36173102-36173121 | MsG0180002279.01.T01:CDS | 45.0% | |
| TTGGACCAACAAGGTATGGT+TGG | + | Chr1:36173016-36173035 | MsG0180002279.01.T01:CDS | 45.0% | |
| ATCATTGCCTTCCGGCCTAT+TGG | - | Chr1:36173184-36173203 | None:intergenic | 50.0% | |
| ! | GACCGACTTAGCCCTAAAAC+TGG | + | Chr1:36173333-36173352 | MsG0180002279.01.T01:three_prime_UTR | 50.0% |
| CTTCCGGCCTATTGGCAAGA+GGG | - | Chr1:36173176-36173195 | None:intergenic | 55.0% | |
| TGTCCCTCTTGCCAATAGGC+CGG | + | Chr1:36173170-36173189 | MsG0180002279.01.T01:CDS | 55.0% | |
| CCTCTTGCCAATAGGCCGGA+AGG | + | Chr1:36173174-36173193 | MsG0180002279.01.T01:CDS | 60.0% | |
| CCTTCCGGCCTATTGGCAAG+AGG | - | Chr1:36173177-36173196 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr1 | gene | 36172977 | 36173427 | 36172977 | ID=MsG0180002279.01;Name=MsG0180002279.01 |
| Chr1 | mRNA | 36172977 | 36173427 | 36172977 | ID=MsG0180002279.01.T01;Parent=MsG0180002279.01;Name=MsG0180002279.01.T01;_AED=0.20;_eAED=0.20;_QI=0|1|0.66|1|0|0.33|3|163|95 |
| Chr1 | exon | 36172977 | 36173427 | 36172977 | ID=MsG0180002279.01.T01:exon:1127;Parent=MsG0180002279.01.T01 |
| Chr1 | CDS | 36172977 | 36173264 | 36172977 | ID=MsG0180002279.01.T01:cds;Parent=MsG0180002279.01.T01 |
| Chr1 | three_prime_UTR | 36173265 | 36173427 | 36173265 | ID=MsG0180002279.01.T01:three_prime_utr;Parent=MsG0180002279.01.T01 |
| Gene Sequence |
| Protein sequence |
