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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1060520 | XP_013448823.1 | 96.386 | 83 | 3 | 0 | 1 | 83 | 38 | 120 | 2.32e-50 | 164 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1060520 | A0A072UAN8 | 96.386 | 83 | 3 | 0 | 1 | 83 | 38 | 120 | 1.11e-50 | 164 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0023610 | Msa1060520 | 0.801763 | 7.722519e-49 | -8.615850e-47 |
| Msa0675510 | Msa1060520 | 0.805621 | 1.221691e-49 | -8.615850e-47 |
| Msa0815320 | Msa1060520 | 0.802294 | 6.007712e-49 | -8.615850e-47 |
| Msa1006250 | Msa1060520 | 0.803421 | 3.514985e-49 | -8.615850e-47 |
| Msa1060520 | Msa1359820 | 0.800898 | 1.161162e-48 | -8.615850e-47 |
| Msa0912500 | Msa1060520 | 0.812219 | 4.731800e-51 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1060520 | MtrunA17_Chr7g0238011 | 96.386 | 83 | 3 | 0 | 1 | 83 | 38 | 120 | 2.14e-54 | 164 |
| Msa1060520 | MtrunA17_Chr4g0005161 | 66.667 | 75 | 25 | 0 | 1 | 75 | 38 | 112 | 3.01e-31 | 105 |
| Msa1060520 | MtrunA17_Chr4g0071771 | 54.667 | 75 | 34 | 0 | 1 | 75 | 38 | 112 | 5.23e-23 | 84.7 |
| Msa1060520 | MtrunA17_Chr4g0071761 | 46.667 | 75 | 40 | 0 | 1 | 75 | 38 | 112 | 7.79e-20 | 76.6 |
| Msa1060520 | MtrunA17_Chr4g0005151 | 46.154 | 65 | 35 | 0 | 1 | 65 | 38 | 102 | 1.24e-16 | 68.6 |
| Msa1060520 | MtrunA17_Chr7g0243451 | 40.580 | 69 | 41 | 0 | 1 | 69 | 38 | 106 | 2.89e-15 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1060520 | AT5G01650.1 | 58.974 | 78 | 32 | 0 | 1 | 78 | 38 | 115 | 1.06e-28 | 99.8 |
| Msa1060520 | AT5G01650.4 | 60.563 | 71 | 28 | 0 | 1 | 71 | 38 | 108 | 3.95e-27 | 95.5 |
| Msa1060520 | AT5G01650.2 | 60.000 | 70 | 28 | 0 | 1 | 70 | 38 | 107 | 2.86e-26 | 93.6 |
| Msa1060520 | AT5G01650.3 | 60.000 | 70 | 28 | 0 | 1 | 70 | 38 | 107 | 2.86e-26 | 93.6 |
| Msa1060520 | AT5G57170.1 | 49.333 | 75 | 38 | 0 | 1 | 75 | 38 | 112 | 5.30e-18 | 72.4 |
| Msa1060520 | AT5G57170.2 | 52.308 | 65 | 31 | 0 | 1 | 65 | 38 | 102 | 1.10e-17 | 71.6 |
| Msa1060520 | AT3G51660.1 | 39.394 | 66 | 40 | 0 | 2 | 67 | 39 | 104 | 8.36e-11 | 53.9 |
Find 42 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTACTTCATACATATATTT+AGG | 0.180060 | 7_2:-48837786 | None:intergenic |
| CTTTACTTTCTCATGAGTTC+AGG | 0.339663 | 7_2:+48837467 | Msa1060520:three_prime_UTR |
| ACAAGTTTCTCGGAATCATT+TGG | 0.359454 | 7_2:-48837417 | None:intergenic |
| GGCTATAATTGTGGACTGAA+TGG | 0.371081 | 7_2:+48837374 | Msa1060520:CDS |
| GGATCAATACCAATATGTTT+TGG | 0.376407 | 7_2:+48837094 | Msa1060520:CDS |
| TCAGTTTCACCAAAACATAT+TGG | 0.384156 | 7_2:-48837103 | None:intergenic |
| GCTATAATTGTGGACTGAAT+GGG | 0.390793 | 7_2:+48837375 | Msa1060520:CDS |
| AGGAACTACATAAGGGGAAT+TGG | 0.401553 | 7_2:-48837568 | None:intergenic |
| TATGGTGAATTTGTGGCTAT+TGG | 0.409602 | 7_2:+48837139 | Msa1060520:CDS |
| GAAAGAAAAGGAACTACATA+AGG | 0.420825 | 7_2:-48837576 | None:intergenic |
| TTGATCTATCAGGACGGATC+AGG | 0.427485 | 7_2:+48837545 | Msa1060520:three_prime_UTR |
| GAATCTATCCACAAGTTTCT+CGG | 0.427754 | 7_2:-48837427 | None:intergenic |
| CACCACTACACAAATCTTTG+CGG | 0.432759 | 7_2:+48837669 | Msa1060520:three_prime_UTR |
| AGTTCTTCACACCATGTTGT+CGG | 0.443341 | 7_2:+48837210 | Msa1060520:CDS |
| TTTAAGTAGAAACGTGGCTT+AGG | 0.454227 | 7_2:-48837235 | None:intergenic |
| ACTGAGGAGCCAGCAGCATA+TGG | 0.461454 | 7_2:+48837121 | Msa1060520:CDS |
| CTTAAAATTCTATGACATTG+AGG | 0.475447 | 7_2:+48837252 | Msa1060520:CDS |
| AAAGAAAAGGAACTACATAA+GGG | 0.477790 | 7_2:-48837575 | None:intergenic |
| TCATTGTACACCAAGGAAAC+CGG | 0.485814 | 7_2:-48837598 | None:intergenic |
| CCAAGGAAACCGGAAAGAAA+AGG | 0.489163 | 7_2:-48837588 | None:intergenic |
| GTTTCCTTGGTGTACAATGA+AGG | 0.495078 | 7_2:+48837601 | Msa1060520:three_prime_UTR |
| TAAGTTAAAACATAATTCCT+CGG | 0.505039 | 7_2:-48837496 | None:intergenic |
| AGCAGCATATGGTGAATTTG+TGG | 0.510208 | 7_2:+48837132 | Msa1060520:CDS |
| AAGTTAAAACATAATTCCTC+GGG | 0.519410 | 7_2:-48837495 | None:intergenic |
| CTATAATTGTGGACTGAATG+GGG | 0.522842 | 7_2:+48837376 | Msa1060520:CDS |
| AAAGATTTGTGTAGTGGTGA+GGG | 0.540876 | 7_2:-48837665 | None:intergenic |
| ACAAATTCACCATATGCTGC+TGG | 0.542569 | 7_2:-48837130 | None:intergenic |
| TATGTGACGGTATCATTAGA+AGG | 0.548882 | 7_2:+48837073 | Msa1060520:CDS |
| CAACATGGTGTGAAGAACTA+AGG | 0.556695 | 7_2:-48837206 | None:intergenic |
| CAAAGATTTGTGTAGTGGTG+AGG | 0.559857 | 7_2:-48837666 | None:intergenic |
| AAATGATTCCGAGAAACTTG+TGG | 0.574686 | 7_2:+48837419 | Msa1060520:exon |
| GGTGTACAATGAAGGCTATG+AGG | 0.593748 | 7_2:+48837609 | Msa1060520:three_prime_UTR |
| AGCCGCAAAGATTTGTGTAG+TGG | 0.605505 | 7_2:-48837671 | None:intergenic |
| TATTGATTTACAGTATGTGA+CGG | 0.607679 | 7_2:+48837060 | None:intergenic |
| TATAATTGTGGACTGAATGG+GGG | 0.616645 | 7_2:+48837377 | Msa1060520:CDS |
| TGGCTTAGGCACCGACAACA+TGG | 0.632202 | 7_2:-48837221 | None:intergenic |
| AAGAAAAGGAACTACATAAG+GGG | 0.637030 | 7_2:-48837574 | None:intergenic |
| TCCTGATAGATCAAAAGAGT+AGG | 0.648585 | 7_2:-48837536 | None:intergenic |
| AATGTGCAGGGCTATAATTG+TGG | 0.693676 | 7_2:+48837365 | Msa1060520:intron |
| ATGAGTTCAGGATCATCCCG+AGG | 0.694596 | 7_2:+48837479 | Msa1060520:three_prime_UTR |
| GGGTTTATGTAGTATACACG+AGG | 0.732060 | 7_2:-48837645 | None:intergenic |
| ATAGCCTTCATTGTACACCA+AGG | 0.735574 | 7_2:-48837605 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTCGAGATTGTAAATTT+GGG | - | chr7_2:48837280-48837299 | None:intergenic | 20.0% |
| !! | ATAATTCGAGATTGTAAATT+TGG | - | chr7_2:48837281-48837300 | None:intergenic | 20.0% |
| !! | TAAGTTAAAACATAATTCCT+CGG | - | chr7_2:48837499-48837518 | None:intergenic | 20.0% |
| !!! | ATTATGTTTTAACTTATGCT+AGG | + | chr7_2:48837503-48837522 | Msa1060520:three_prime_UTR | 20.0% |
| !!! | TTATGTTTTAACTTATGCTA+GGG | + | chr7_2:48837504-48837523 | Msa1060520:three_prime_UTR | 20.0% |
| !! | ACTACTTCATACATATATTT+AGG | - | chr7_2:48837789-48837808 | None:intergenic | 20.0% |
| !!! | CTTAGTTTTTTGTTCAAATC+TGG | - | chr7_2:48837175-48837194 | None:intergenic | 25.0% |
| !!! | TAGAATTTTAAGTAGAAACG+TGG | - | chr7_2:48837244-48837263 | None:intergenic | 25.0% |
| ! | CTTAAAATTCTATGACATTG+AGG | + | chr7_2:48837252-48837271 | Msa1060520:CDS | 25.0% |
| ! | TAATACTATAAAGTTGAGAG+TGG | - | chr7_2:48837325-48837344 | None:intergenic | 25.0% |
| ! | AAGTTAAAACATAATTCCTC+GGG | - | chr7_2:48837498-48837517 | None:intergenic | 25.0% |
| !!! | TATGTTTTAACTTATGCTAG+GGG | + | chr7_2:48837505-48837524 | Msa1060520:three_prime_UTR | 25.0% |
| ! | AAAGAAAAGGAACTACATAA+GGG | - | chr7_2:48837578-48837597 | None:intergenic | 25.0% |
| ! | GGATCAATACCAATATGTTT+TGG | + | chr7_2:48837094-48837113 | Msa1060520:CDS | 30.0% |
| TCAGTTTCACCAAAACATAT+TGG | - | chr7_2:48837106-48837125 | None:intergenic | 30.0% | |
| !!! | AATATGTTTTGGTGAAACTG+AGG | + | chr7_2:48837105-48837124 | Msa1060520:CDS | 30.0% |
| ! | TCATTTGTTTGTTAATGTGC+AGG | + | chr7_2:48837352-48837371 | Msa1060520:intron | 30.0% |
| ! | CATTTGTTTGTTAATGTGCA+GGG | + | chr7_2:48837353-48837372 | Msa1060520:intron | 30.0% |
| AAGAAAAGGAACTACATAAG+GGG | - | chr7_2:48837577-48837596 | None:intergenic | 30.0% | |
| GAAAGAAAAGGAACTACATA+AGG | - | chr7_2:48837579-48837598 | None:intergenic | 30.0% | |
| ! | TATGTAGTTCCTTTTCTTTC+CGG | + | chr7_2:48837579-48837598 | Msa1060520:three_prime_UTR | 30.0% |
| TATGTGACGGTATCATTAGA+AGG | + | chr7_2:48837073-48837092 | Msa1060520:CDS | 35.0% | |
| TATGGTGAATTTGTGGCTAT+TGG | + | chr7_2:48837139-48837158 | Msa1060520:CDS | 35.0% | |
| TTTAAGTAGAAACGTGGCTT+AGG | - | chr7_2:48837238-48837257 | None:intergenic | 35.0% | |
| ! | GCTATAATTGTGGACTGAAT+GGG | + | chr7_2:48837375-48837394 | Msa1060520:CDS | 35.0% |
| ! | CTATAATTGTGGACTGAATG+GGG | + | chr7_2:48837376-48837395 | Msa1060520:CDS | 35.0% |
| ! | TATAATTGTGGACTGAATGG+GGG | + | chr7_2:48837377-48837396 | Msa1060520:CDS | 35.0% |
| ACAAGTTTCTCGGAATCATT+TGG | - | chr7_2:48837420-48837439 | None:intergenic | 35.0% | |
| AAATGATTCCGAGAAACTTG+TGG | + | chr7_2:48837419-48837438 | Msa1060520:exon | 35.0% | |
| GAATCTATCCACAAGTTTCT+CGG | - | chr7_2:48837430-48837449 | None:intergenic | 35.0% | |
| CTTTACTTTCTCATGAGTTC+AGG | + | chr7_2:48837467-48837486 | Msa1060520:three_prime_UTR | 35.0% | |
| ! | TCCTACTCTTTTGATCTATC+AGG | + | chr7_2:48837535-48837554 | Msa1060520:three_prime_UTR | 35.0% |
| TCCTGATAGATCAAAAGAGT+AGG | - | chr7_2:48837539-48837558 | None:intergenic | 35.0% | |
| ! | ACTCTTTTGATCTATCAGGA+CGG | + | chr7_2:48837539-48837558 | Msa1060520:three_prime_UTR | 35.0% |
| AAAGATTTGTGTAGTGGTGA+GGG | - | chr7_2:48837668-48837687 | None:intergenic | 35.0% | |
| ACAAATTCACCATATGCTGC+TGG | - | chr7_2:48837133-48837152 | None:intergenic | 40.0% | |
| AGCAGCATATGGTGAATTTG+TGG | + | chr7_2:48837132-48837151 | Msa1060520:CDS | 40.0% | |
| CAACATGGTGTGAAGAACTA+AGG | - | chr7_2:48837209-48837228 | None:intergenic | 40.0% | |
| AGTTCTTCACACCATGTTGT+CGG | + | chr7_2:48837210-48837229 | Msa1060520:CDS | 40.0% | |
| AATGTGCAGGGCTATAATTG+TGG | + | chr7_2:48837365-48837384 | Msa1060520:intron | 40.0% | |
| ! | GGCTATAATTGTGGACTGAA+TGG | + | chr7_2:48837374-48837393 | Msa1060520:CDS | 40.0% |
| AGGAACTACATAAGGGGAAT+TGG | - | chr7_2:48837571-48837590 | None:intergenic | 40.0% | |
| TCATTGTACACCAAGGAAAC+CGG | - | chr7_2:48837601-48837620 | None:intergenic | 40.0% | |
| ! | GTTTCCTTGGTGTACAATGA+AGG | + | chr7_2:48837601-48837620 | Msa1060520:three_prime_UTR | 40.0% |
| ATAGCCTTCATTGTACACCA+AGG | - | chr7_2:48837608-48837627 | None:intergenic | 40.0% | |
| GGGTTTATGTAGTATACACG+AGG | - | chr7_2:48837648-48837667 | None:intergenic | 40.0% | |
| CAAAGATTTGTGTAGTGGTG+AGG | - | chr7_2:48837669-48837688 | None:intergenic | 40.0% | |
| CACCACTACACAAATCTTTG+CGG | + | chr7_2:48837669-48837688 | Msa1060520:three_prime_UTR | 40.0% | |
| TTGATCTATCAGGACGGATC+AGG | + | chr7_2:48837545-48837564 | Msa1060520:three_prime_UTR | 45.0% | |
| CCAAGGAAACCGGAAAGAAA+AGG | - | chr7_2:48837591-48837610 | None:intergenic | 45.0% | |
| ! | CCTTTTCTTTCCGGTTTCCT+TGG | + | chr7_2:48837588-48837607 | Msa1060520:three_prime_UTR | 45.0% |
| GGTGTACAATGAAGGCTATG+AGG | + | chr7_2:48837609-48837628 | Msa1060520:three_prime_UTR | 45.0% | |
| AGCCGCAAAGATTTGTGTAG+TGG | - | chr7_2:48837674-48837693 | None:intergenic | 45.0% | |
| ATGAGTTCAGGATCATCCCG+AGG | + | chr7_2:48837479-48837498 | Msa1060520:three_prime_UTR | 50.0% | |
| ACTGAGGAGCCAGCAGCATA+TGG | + | chr7_2:48837121-48837140 | Msa1060520:CDS | 55.0% | |
| !! | TGGCTTAGGCACCGACAACA+TGG | - | chr7_2:48837224-48837243 | None:intergenic | 55.0% |
| TGGACTGAATGGGGGTCTCA+TGG | + | chr7_2:48837385-48837404 | Msa1060520:CDS | 55.0% | |
| ACTGAATGGGGGTCTCATGG+TGG | + | chr7_2:48837388-48837407 | Msa1060520:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 48837073 | 48837811 | 48837073 | ID=Msa1060520;Name=Msa1060520 |
| chr7_2 | mRNA | 48837073 | 48837811 | 48837073 | ID=Msa1060520-mRNA-1;Parent=Msa1060520;Name=Msa1060520-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|1|1|1|1|1|2|387|83 |
| chr7_2 | exon | 48837073 | 48837273 | 48837073 | ID=Msa1060520-mRNA-1:exon:8769;Parent=Msa1060520-mRNA-1 |
| chr7_2 | exon | 48837374 | 48837811 | 48837374 | ID=Msa1060520-mRNA-1:exon:8770;Parent=Msa1060520-mRNA-1 |
| chr7_2 | CDS | 48837073 | 48837273 | 48837073 | ID=Msa1060520-mRNA-1:cds;Parent=Msa1060520-mRNA-1 |
| chr7_2 | CDS | 48837374 | 48837424 | 48837374 | ID=Msa1060520-mRNA-1:cds;Parent=Msa1060520-mRNA-1 |
| chr7_2 | three_prime_UTR | 48837425 | 48837811 | 48837425 | ID=Msa1060520-mRNA-1:three_prime_utr;Parent=Msa1060520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
