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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0557890 | XP_013457026.1 | 97.041 | 507 | 13 | 1 | 1 | 505 | 1 | 507 | 0.0 | 1020 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0557890 | sp|Q2MHE4|HT1_ARATH | 55.357 | 280 | 123 | 1 | 189 | 468 | 77 | 354 | 3.55e-116 | 350 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0557890 | A0A072UMY7 | 97.041 | 507 | 13 | 1 | 1 | 505 | 1 | 507 | 0.0 | 1020 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0557890 | MtrunA17_Chr4g0047201 | 97.041 | 507 | 13 | 1 | 1 | 505 | 1 | 507 | 0.0 | 1020 |
| Msa0557890 | MtrunA17_Chr2g0282321 | 67.446 | 513 | 114 | 7 | 1 | 505 | 1 | 468 | 0.0 | 684 |
| Msa0557890 | MtrunA17_Chr4g0047191 | 83.333 | 360 | 48 | 3 | 149 | 505 | 3 | 353 | 0.0 | 627 |
| Msa0557890 | MtrunA17_Chr4g0047211 | 84.078 | 358 | 40 | 3 | 151 | 505 | 5 | 348 | 0.0 | 624 |
| Msa0557890 | MtrunA17_Chr4g0075541 | 54.417 | 283 | 127 | 1 | 186 | 468 | 75 | 355 | 6.99e-117 | 349 |
| Msa0557890 | MtrunA17_Chr3g0117731 | 52.843 | 299 | 138 | 2 | 166 | 464 | 26 | 321 | 1.73e-116 | 347 |
| Msa0557890 | MtrunA17_Chr4g0059121 | 49.833 | 299 | 147 | 2 | 166 | 464 | 27 | 322 | 3.75e-113 | 338 |
| Msa0557890 | MtrunA17_Chr3g0090261 | 47.464 | 276 | 143 | 1 | 183 | 458 | 67 | 340 | 3.86e-99 | 303 |
| Msa0557890 | MtrunA17_Chr8g0388891 | 44.364 | 275 | 130 | 2 | 184 | 458 | 119 | 370 | 3.24e-82 | 260 |
| Msa0557890 | MtrunA17_Chr7g0244621 | 41.971 | 274 | 146 | 4 | 193 | 457 | 40 | 309 | 1.06e-77 | 248 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0557890 | AT5G58950.1 | 56.061 | 528 | 206 | 6 | 1 | 505 | 1 | 525 | 0.0 | 602 |
| Msa0557890 | AT3G46930.2 | 48.077 | 520 | 250 | 6 | 1 | 505 | 1 | 515 | 6.33e-159 | 462 |
| Msa0557890 | AT3G46930.1 | 50.441 | 454 | 205 | 6 | 67 | 505 | 32 | 480 | 8.07e-147 | 429 |
| Msa0557890 | AT3G46930.3 | 48.526 | 441 | 208 | 8 | 1 | 433 | 1 | 430 | 1.16e-129 | 384 |
| Msa0557890 | AT3G46930.4 | 48.526 | 441 | 208 | 8 | 1 | 433 | 1 | 430 | 1.51e-129 | 384 |
| Msa0557890 | AT3G46930.5 | 51.206 | 373 | 167 | 6 | 67 | 433 | 32 | 395 | 7.68e-118 | 352 |
| Msa0557890 | AT1G62400.1 | 55.357 | 280 | 123 | 1 | 189 | 468 | 77 | 354 | 3.61e-117 | 350 |
| Msa0557890 | AT3G46930.6 | 51.471 | 340 | 152 | 5 | 100 | 433 | 2 | 334 | 9.29e-108 | 325 |
| Msa0557890 | AT4G31170.7 | 46.154 | 273 | 145 | 1 | 189 | 461 | 122 | 392 | 6.40e-92 | 286 |
| Msa0557890 | AT4G31170.6 | 46.154 | 273 | 145 | 1 | 189 | 461 | 122 | 392 | 6.40e-92 | 286 |
Find 157 sgRNAs with CRISPR-Local
Find 265 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAACCTGTTAGTTGTGG+AGG | 0.576931 | 4_1:+56388999 | Msa0557890:five_prime_UTR |
| AAAGGTTACCGCAGTCGAAA+CGG | 0.534106 | 4_1:+56389960 | Msa0557890:CDS |
| AAAGTTTCTCTCATATTATG+TGG | 0.433511 | 4_1:+56389188 | Msa0557890:five_prime_UTR |
| AACAAGACTCAGAACCAAAA+GGG | 0.496694 | 4_1:-56389319 | None:intergenic |
| AAGAAACAACCTGTTAGTTG+TGG | 0.589153 | 4_1:+56388996 | Msa0557890:five_prime_UTR |
| AAGCCAAGCATGAACAGAAG+AGG | 0.602150 | 4_1:+56389740 | Msa0557890:CDS |
| AAGGACAAAATTCTCTCACA+CGG | 0.652886 | 4_1:+56389450 | Msa0557890:CDS |
| AAGGTTGATGTGTATAGTTT+TGG | 0.294015 | 4_1:+56391013 | Msa0557890:CDS |
| AAGTTTCTCTCATATTATGT+GGG | 0.564427 | 4_1:+56389189 | Msa0557890:five_prime_UTR |
| AATTAGCTTCTGTAGAGAAA+TGG | 0.420850 | 4_1:-56390765 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAGGAAGAGAAAAATCAAAT+CGG | - | chr4_1:56388732-56388751 | None:intergenic | 30.0% | |
| TTAATCTGTGTGTGATTTCA+AGG | + | chr4_1:56388940-56388959 | Msa0557890:intron | 30.0% | |
| CTTTCAAACCAATCAAAAAC+AGG | - | chr4_1:56389172-56389191 | None:intergenic | 30.0% | |
| AGAACATTGTTTGAGAATTG+AGG | + | chr4_1:56389292-56389311 | Msa0557890:five_prime_UTR | 30.0% | |
| TGGATGAAACTAGTAATTCT+TGG | + | chr4_1:56389422-56389441 | Msa0557890:CDS | 30.0% | |
| CTAGTAATTCTTGGTTAAGA+AGG | + | chr4_1:56389431-56389450 | Msa0557890:CDS | 30.0% | |
| TGTTGCTGTCAAAATAATCA+GGG | + | chr4_1:56390083-56390102 | Msa0557890:CDS | 30.0% | |
| AATAATCGGCTGTAAAAACA+AGG | + | chr4_1:56390505-56390524 | Msa0557890:intron | 30.0% | |
| TCTGTGATAACACAATAAAC+AGG | - | chr4_1:56390692-56390711 | None:intergenic | 30.0% | |
| ATCACAGAATATCTATCAGA+AGG | + | chr4_1:56390704-56390723 | Msa0557890:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 56388659 | 56392538 | 56388659 | ID=Msa0557890;Name=Msa0557890 |
| chr4_1 | mRNA | 56388659 | 56392538 | 56388659 | ID=Msa0557890-mRNA-1;Parent=Msa0557890;Name=Msa0557890-mRNA-1;_AED=0.18;_eAED=0.18;_QI=581|1|1|1|0.66|0.5|4|379|505 |
| chr4_1 | exon | 56388659 | 56388780 | 56388659 | ID=Msa0557890-mRNA-1:exon:16955;Parent=Msa0557890-mRNA-1 |
| chr4_1 | exon | 56388962 | 56390209 | 56388962 | ID=Msa0557890-mRNA-1:exon:16956;Parent=Msa0557890-mRNA-1 |
| chr4_1 | exon | 56390665 | 56391120 | 56390665 | ID=Msa0557890-mRNA-1:exon:16957;Parent=Msa0557890-mRNA-1 |
| chr4_1 | exon | 56391887 | 56392538 | 56391887 | ID=Msa0557890-mRNA-1:exon:16958;Parent=Msa0557890-mRNA-1 |
| chr4_1 | five_prime_UTR | 56388659 | 56388780 | 56388659 | ID=Msa0557890-mRNA-1:five_prime_utr;Parent=Msa0557890-mRNA-1 |
| chr4_1 | five_prime_UTR | 56388962 | 56389420 | 56388962 | ID=Msa0557890-mRNA-1:five_prime_utr;Parent=Msa0557890-mRNA-1 |
| chr4_1 | CDS | 56389421 | 56390209 | 56389421 | ID=Msa0557890-mRNA-1:cds;Parent=Msa0557890-mRNA-1 |
| chr4_1 | CDS | 56390665 | 56391120 | 56390665 | ID=Msa0557890-mRNA-1:cds;Parent=Msa0557890-mRNA-1 |
| chr4_1 | CDS | 56391887 | 56392159 | 56391887 | ID=Msa0557890-mRNA-1:cds;Parent=Msa0557890-mRNA-1 |
| chr4_1 | three_prime_UTR | 56392160 | 56392538 | 56392160 | ID=Msa0557890-mRNA-1:three_prime_utr;Parent=Msa0557890-mRNA-1 |
| Gene Sequence |
>Msa0557890 ATGGATGAAACTAGTAATTCTTGGTTAAGAAGGACAAAATTCTCTCACACGGTTTGTCACCGATTGGATTATACGAGAATGGGCTCTTTCATTATTCAGCAAGATGCAGTGCTGAATTCGGGTCTGAAATCGAGGACAGGATCATTAACTTCATCAGCATCAGTAACAGCAGCATCGGCACCAGCTTCGGCAACAGCAACAGCAGCATCAGCACCTCCTGTTGTTTCTAAGGTTTCAAAGGTTCAGAAACATCCTTTAACAAATAAGCAGAGATCTTTGTCTCCTTTGCCTGAAACCTCTCTCTCTCAAACCTTTAAGGAAGCCAAGCATGAACAGAAGAGGTTCTCGACTCCTTGTCCAAGAAGGAAAGAGCAGGATACAAGAATCATGGGGAAACTACTGAACAAGGACTCTCACGTTTCCAAATCTAAATCGCCGCAAAAAAGTCCAATTAGGCACTTTTCATCGATGAGATTCAGTGACAAGTCGAAGAACCGAAAGGACTCGGGATGGACAAAGTATTTTGATCACGGTGGAGGAAAGGTTACCGCAGTCGAAACGGCTGAGGAATGGAATGTTGACCTCTCTAAGCTCTTTGTTGGTCTTAGGTTTGCTTATGGGGCTCACAGTAGGCTTTACCATGGTATGTATGAGGAGGAACCTGTTGCTGTCAAAATAATCAGGGTACCAGATGATGACGAAAACGGAACAATGGCTGCTACATTAGAGAAACAATTCATCACAGAAGTCACACTTTTATCTCGCCTCCACCATCAAAATGTTCTTAAGTTTGTAGCAGCATGCAGAAAGCCACCTGTTTATTGTGTTATCACAGAATATCTATCAGAAGGTTCATTGAGGTCATATTTGCATAAGTTGGAGGGGAAAACCATTTCTCTACAGAAGCTAATTGCTTTTTCTCTGGATATTGCTCGTGGAATGGAGTATATACACTCTCAAGGTGTCATTCATCGAGACCTTAAACCAGAGAATGTTCTCATTAATGGGGACTCTCATCTTAAAATTGCTGATTTTGGCATTGCTTGTGAGGAAGCATACTGCGACTTACTTGCTGATGACCCTGGCACTTACCGTTGGATGGCACCTGAGATGATCAGACGAAAGTCCTATGGGAGAAAGGTTGATGTGTATAGTTTTGGGCTTATCTTATGGGAAATGCTCACCGGTACAATACCATACGAGGATATGACTCCCATCCAAGCTGCTTTTGCTGTCGTAAATAAGAATTCAAGGCCTATTATTCCTTCAAACTGCCCACCAGCTATGCGAGCTTTAATTGAGCAATGTTGGTCCTTGAATCCGGACAAAAGGCCTGATTTCTGGCAGGTTGTTAAGGTGTTGGAACAATTTGAATCTTCGCTTGCTCGTGATGGAACATTGACCCTGCTACAAAACCCTTGTGGCCAAGATCATAAAAAAGGGCTTCTTCATTGGATTCAAAAGCTTAGTCATGCACATCATAGTAGTGGTCCTGTGCCTAAACCAAAATTTACATGA |
| Protein sequence |
>Msa0557890 MDETSNSWLRRTKFSHTVCHRLDYTRMGSFIIQQDAVLNSGLKSRTGSLTSSASVTAASAPASATATAASAPPVVSKVSKVQKHPLTNKQRSLSPLPETSLSQTFKEAKHEQKRFSTPCPRRKEQDTRIMGKLLNKDSHVSKSKSPQKSPIRHFSSMRFSDKSKNRKDSGWTKYFDHGGGKVTAVETAEEWNVDLSKLFVGLRFAYGAHSRLYHGMYEEEPVAVKIIRVPDDDENGTMAATLEKQFITEVTLLSRLHHQNVLKFVAACRKPPVYCVITEYLSEGSLRSYLHKLEGKTISLQKLIAFSLDIARGMEYIHSQGVIHRDLKPENVLINGDSHLKIADFGIACEEAYCDLLADDPGTYRWMAPEMIRRKSYGRKVDVYSFGLILWEMLTGTIPYEDMTPIQAAFAVVNKNSRPIIPSNCPPAMRALIEQCWSLNPDKRPDFWQVVKVLEQFESSLARDGTLTLLQNPCGQDHKKGLLHWIQKLSHAHHSSGPVPKPKFT* |
