AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0711510


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0711510 MtrunA17_Chr5g0394361 97.143 210 5 1 1 210 1 209 9.60e-150 414
Msa0711510 MtrunA17_Chr1g0205591 89.888 89 9 0 122 210 1 89 3.30e-55 170
Msa0711510 MtrunA17_Chr1g0205601 49.533 107 29 3 1 100 1 89 1.10e-19 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0711510 AT1G03130.1 73.684 209 49 3 3 210 1 204 2.56e-105 302
Msa0711510 AT4G02770.1 72.770 213 48 4 3 210 1 208 7.72e-102 293

Find 62 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATTGAAGTTAAGTTTAC+TGG 0.207430 5_1:+3399639 Msa0711510:CDS
AAGGGGTTGGTCAGAATTTC+AGG 0.236961 5_1:+3399595 Msa0711510:CDS
AAAGAACAGTGTTTGGCTTT+AGG 0.250321 5_1:+3399450 Msa0711510:CDS
GATGGTTGTTTCCATGGTTT+AGG 0.251347 5_1:-3399099 None:intergenic
CCAGTAAACTTAACTTCAAT+TGG 0.254455 5_1:-3399639 None:intergenic
TGGCTTTAGGAAATAGATTA+AGG 0.256198 5_1:+3399463 Msa0711510:CDS
AACACACCTTCACCAATCTT+TGG 0.314938 5_1:+3399279 Msa0711510:CDS
GTTAGGACCTTCTCTCATTA+TGG 0.318870 5_1:-3399409 None:intergenic
CGACCAGGGTTAACCTTCTC+AGG 0.322720 5_1:-3399570 None:intergenic
AAATATTGAACCTCACCATT+AGG 0.330180 5_1:-3399525 None:intergenic
ATGGTTGTTTCCATGGTTTA+GGG 0.335226 5_1:-3399098 None:intergenic
CTTGCTAACTTAAGAAGGTT+AGG 0.358826 5_1:-3399426 None:intergenic
TGTTCTTGTTGTGAACTTGA+TGG 0.369555 5_1:-3399148 None:intergenic
GGTCAGAATTTCAGGTCTAT+TGG 0.371295 5_1:+3399603 Msa0711510:CDS
AAGATTGGTGAAGGTGTGTT+TGG 0.388416 5_1:-3399276 None:intergenic
AATATTGAACCTCACCATTA+GGG 0.389009 5_1:-3399524 None:intergenic
AGCAAGGAAAGAACAGTGTT+TGG 0.399243 5_1:+3399443 Msa0711510:CDS
GAGATGAAGGATAAAGTTGA+TGG 0.402382 5_1:-3399117 None:intergenic
CTTTCCTTGCTAACTTAAGA+AGG 0.421239 5_1:-3399431 None:intergenic
GGTGTGTTTGGGTCTAGTTC+AGG 0.421350 5_1:-3399264 None:intergenic
CAGTAAACTTAACTTCAATT+GGG 0.432988 5_1:-3399638 None:intergenic
AAAGTTGATGGTTGTTTCCA+TGG 0.433796 5_1:-3399105 None:intergenic
GTTCTTGTTGTGAACTTGAT+GGG 0.443234 5_1:-3399147 None:intergenic
ATCTCAAAGATTTGTTCCTT+AGG 0.450732 5_1:-3399369 None:intergenic
GATGGGTTTGAGAGAGATGA+AGG 0.471436 5_1:-3399130 None:intergenic
TCAGGGTACACACCATCCTT+AGG 0.473133 5_1:-3399552 None:intergenic
CAAATCTTTGAGATGCCAAC+TGG 0.474824 5_1:+3399378 Msa0711510:CDS
GTGAAACCAACTGGTGCAGC+AGG 0.478227 5_1:-3399237 None:intergenic
AGATTGGTGAAGGTGTGTTT+GGG 0.480790 5_1:-3399275 None:intergenic
GTCAACCCTTACACATCAAA+AGG 0.481319 5_1:-3399669 None:intergenic
CCAATCTTTGGAGGAAGCAC+TGG 0.483310 5_1:+3399291 Msa0711510:CDS
CACTGGTGGTTTGTTACGTA+AGG 0.494140 5_1:+3399308 Msa0711510:CDS
CCAGTGCTTCCTCCAAAGAT+TGG 0.498438 5_1:-3399291 None:intergenic
TCAGGTGGAGTGAAACCAAC+TGG 0.512231 5_1:-3399246 None:intergenic
TGACCAACCCCTTCACGACC+AGG 0.514328 5_1:-3399585 None:intergenic
GGTTCAATATTTGCATCCTA+AGG 0.527977 5_1:+3399536 Msa0711510:CDS
CTAACCTTCTTAAGTTAGCA+AGG 0.531725 5_1:+3399427 Msa0711510:CDS
GAGAGGTGGAGTGAAGAGAG+AGG 0.532656 5_1:-3399070 None:intergenic
ACACCTTCACCAATCTTTGG+AGG 0.538603 5_1:+3399282 Msa0711510:CDS
GAAGCTCCTGCTGCACCAGT+TGG 0.541120 5_1:+3399231 Msa0711510:CDS
AAGGTTAACCCTGGTCGTGA+AGG 0.545203 5_1:+3399576 Msa0711510:CDS
ATCTTTGGAGGAAGCACTGG+TGG 0.547257 5_1:+3399294 Msa0711510:CDS
GTGTTTGGGTCTAGTTCAGG+TGG 0.547713 5_1:-3399261 None:intergenic
AGGTTAACCCTGGTCGTGAA+GGG 0.550600 5_1:+3399577 Msa0711510:CDS
CAATATTTGCATCCTAAGGA+TGG 0.551649 5_1:+3399540 Msa0711510:CDS
GGTTTAGGGCTTGAGAGAGG+TGG 0.569137 5_1:-3399084 None:intergenic
CATGGTTTAGGGCTTGAGAG+AGG 0.581991 5_1:-3399087 None:intergenic
AACCCTGGTCGTGAAGGGGT+TGG 0.582674 5_1:+3399582 Msa0711510:CDS
CTCTCTCAAGCCCTAAACCA+TGG 0.587901 5_1:+3399088 Msa0711510:CDS
GATCACATGGGAGTCACCTA+AGG 0.589857 5_1:+3399353 Msa0711510:CDS
GGATGGTGTGTACCCTGAGA+AGG 0.597067 5_1:+3399557 Msa0711510:CDS
AAGAATTCTATGTGATCACA+TGG 0.598132 5_1:+3399340 Msa0711510:CDS
CTTCCTCCAAAGATTGGTGA+AGG 0.600903 5_1:-3399285 None:intergenic
ATTATGGCTGCACCACCAGT+TGG 0.609110 5_1:-3399393 None:intergenic
GACCAACCCCTTCACGACCA+GGG 0.637725 5_1:-3399584 None:intergenic
GGTGCAGCCATAATGAGAGA+AGG 0.648728 5_1:+3399402 Msa0711510:CDS
GGTTAACCCTGGTCGTGAAG+GGG 0.649178 5_1:+3399578 Msa0711510:CDS
TACCCTGAGAAGGTTAACCC+TGG 0.651425 5_1:+3399567 Msa0711510:CDS
ATTCATCAACAACATGGCAA+TGG 0.658103 5_1:+3399038 None:intergenic
GACCAGGGTTAACCTTCTCA+GGG 0.658939 5_1:-3399569 None:intergenic
ATCTTTGAGATGCCAACTGG+TGG 0.674480 5_1:+3399381 Msa0711510:CDS
AGAATTCTATGTGATCACAT+GGG 0.727784 5_1:+3399341 Msa0711510:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTAAGTATCAGTTTTAC+AGG + chr5_1:3399496-3399515 Msa0711510:CDS 25.0%
!! GATTAAGTATCAGTTTTACA+GGG + chr5_1:3399497-3399516 Msa0711510:CDS 25.0%
! CAGTAAACTTAACTTCAATT+GGG - chr5_1:3399641-3399660 None:intergenic 25.0%
AAGAATTCTATGTGATCACA+TGG + chr5_1:3399340-3399359 Msa0711510:CDS 30.0%
AGAATTCTATGTGATCACAT+GGG + chr5_1:3399341-3399360 Msa0711510:CDS 30.0%
! ATCTCAAAGATTTGTTCCTT+AGG - chr5_1:3399372-3399391 None:intergenic 30.0%
!! TGGCTTTAGGAAATAGATTA+AGG + chr5_1:3399463-3399482 Msa0711510:CDS 30.0%
AATATTGAACCTCACCATTA+GGG - chr5_1:3399527-3399546 None:intergenic 30.0%
AAATATTGAACCTCACCATT+AGG - chr5_1:3399528-3399547 None:intergenic 30.0%
CCAGTAAACTTAACTTCAAT+TGG - chr5_1:3399642-3399661 None:intergenic 30.0%
CCAATTGAAGTTAAGTTTAC+TGG + chr5_1:3399639-3399658 Msa0711510:CDS 30.0%
! ATGGTTGTTTCCATGGTTTA+GGG - chr5_1:3399101-3399120 None:intergenic 35.0%
!! AAAGTTGATGGTTGTTTCCA+TGG - chr5_1:3399108-3399127 None:intergenic 35.0%
GAGATGAAGGATAAAGTTGA+TGG - chr5_1:3399120-3399139 None:intergenic 35.0%
! GTTCTTGTTGTGAACTTGAT+GGG - chr5_1:3399150-3399169 None:intergenic 35.0%
! TGTTCTTGTTGTGAACTTGA+TGG - chr5_1:3399151-3399170 None:intergenic 35.0%
CTTGCTAACTTAAGAAGGTT+AGG - chr5_1:3399429-3399448 None:intergenic 35.0%
CTAACCTTCTTAAGTTAGCA+AGG + chr5_1:3399427-3399446 Msa0711510:CDS 35.0%
CTTTCCTTGCTAACTTAAGA+AGG - chr5_1:3399434-3399453 None:intergenic 35.0%
!! AAAGAACAGTGTTTGGCTTT+AGG + chr5_1:3399450-3399469 Msa0711510:CDS 35.0%
! TTTTACAGGGTTTTCCCTAA+TGG + chr5_1:3399510-3399529 Msa0711510:CDS 35.0%
GGTTCAATATTTGCATCCTA+AGG + chr5_1:3399536-3399555 Msa0711510:CDS 35.0%
CAATATTTGCATCCTAAGGA+TGG + chr5_1:3399540-3399559 Msa0711510:CDS 35.0%
! GATGGTTGTTTCCATGGTTT+AGG - chr5_1:3399102-3399121 None:intergenic 40.0%
! GCTTCTTCTTTTGTTGCAAC+TGG - chr5_1:3399216-3399235 None:intergenic 40.0%
! AGATTGGTGAAGGTGTGTTT+GGG - chr5_1:3399278-3399297 None:intergenic 40.0%
! AAGATTGGTGAAGGTGTGTT+TGG - chr5_1:3399279-3399298 None:intergenic 40.0%
AACACACCTTCACCAATCTT+TGG + chr5_1:3399279-3399298 Msa0711510:CDS 40.0%
!! CAAATCTTTGAGATGCCAAC+TGG + chr5_1:3399378-3399397 Msa0711510:CDS 40.0%
GTTAGGACCTTCTCTCATTA+TGG - chr5_1:3399412-3399431 None:intergenic 40.0%
AGCAAGGAAAGAACAGTGTT+TGG + chr5_1:3399443-3399462 Msa0711510:CDS 40.0%
! GGTCAGAATTTCAGGTCTAT+TGG + chr5_1:3399603-3399622 Msa0711510:CDS 40.0%
! GATGGGTTTGAGAGAGATGA+AGG - chr5_1:3399133-3399152 None:intergenic 45.0%
ACACCTTCACCAATCTTTGG+AGG + chr5_1:3399282-3399301 Msa0711510:CDS 45.0%
CTTCCTCCAAAGATTGGTGA+AGG - chr5_1:3399288-3399307 None:intergenic 45.0%
!! CACTGGTGGTTTGTTACGTA+AGG + chr5_1:3399308-3399327 Msa0711510:CDS 45.0%
!! ATCTTTGAGATGCCAACTGG+TGG + chr5_1:3399381-3399400 Msa0711510:CDS 45.0%
!! AAGGGGTTGGTCAGAATTTC+AGG + chr5_1:3399595-3399614 Msa0711510:CDS 45.0%
! CATGGTTTAGGGCTTGAGAG+AGG - chr5_1:3399090-3399109 None:intergenic 50.0%
CTCTCTCAAGCCCTAAACCA+TGG + chr5_1:3399088-3399107 Msa0711510:CDS 50.0%
TCAGGTGGAGTGAAACCAAC+TGG - chr5_1:3399249-3399268 None:intergenic 50.0%
! GTGTTTGGGTCTAGTTCAGG+TGG - chr5_1:3399264-3399283 None:intergenic 50.0%
! GGTGTGTTTGGGTCTAGTTC+AGG - chr5_1:3399267-3399286 None:intergenic 50.0%
CCAGTGCTTCCTCCAAAGAT+TGG - chr5_1:3399294-3399313 None:intergenic 50.0%
! CCAATCTTTGGAGGAAGCAC+TGG + chr5_1:3399291-3399310 Msa0711510:CDS 50.0%
!! ATCTTTGGAGGAAGCACTGG+TGG + chr5_1:3399294-3399313 Msa0711510:CDS 50.0%
GATCACATGGGAGTCACCTA+AGG + chr5_1:3399353-3399372 Msa0711510:CDS 50.0%
ATTATGGCTGCACCACCAGT+TGG - chr5_1:3399396-3399415 None:intergenic 50.0%
GGTGCAGCCATAATGAGAGA+AGG + chr5_1:3399402-3399421 Msa0711510:CDS 50.0%
! CAGGGTTTTCCCTAATGGTG+AGG + chr5_1:3399515-3399534 Msa0711510:CDS 50.0%
TCAGGGTACACACCATCCTT+AGG - chr5_1:3399555-3399574 None:intergenic 50.0%
TACCCTGAGAAGGTTAACCC+TGG + chr5_1:3399567-3399586 Msa0711510:CDS 50.0%
GACCAGGGTTAACCTTCTCA+GGG - chr5_1:3399572-3399591 None:intergenic 50.0%
AAGGTTAACCCTGGTCGTGA+AGG + chr5_1:3399576-3399595 Msa0711510:CDS 50.0%
AGGTTAACCCTGGTCGTGAA+GGG + chr5_1:3399577-3399596 Msa0711510:CDS 50.0%
GAGAGGTGGAGTGAAGAGAG+AGG - chr5_1:3399073-3399092 None:intergenic 55.0%
! GGTTTAGGGCTTGAGAGAGG+TGG - chr5_1:3399087-3399106 None:intergenic 55.0%
GTGAAACCAACTGGTGCAGC+AGG - chr5_1:3399240-3399259 None:intergenic 55.0%
GGATGGTGTGTACCCTGAGA+AGG + chr5_1:3399557-3399576 Msa0711510:CDS 55.0%
CGACCAGGGTTAACCTTCTC+AGG - chr5_1:3399573-3399592 None:intergenic 55.0%
GGTTAACCCTGGTCGTGAAG+GGG + chr5_1:3399578-3399597 Msa0711510:CDS 55.0%
GAAGCTCCTGCTGCACCAGT+TGG + chr5_1:3399231-3399250 Msa0711510:CDS 60.0%
AACCCTGGTCGTGAAGGGGT+TGG + chr5_1:3399582-3399601 Msa0711510:CDS 60.0%
GACCAACCCCTTCACGACCA+GGG - chr5_1:3399587-3399606 None:intergenic 60.0%
TGACCAACCCCTTCACGACC+AGG - chr5_1:3399588-3399607 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr5_1 gene 3399051 3399683 3399051 ID=Msa0711510;Name=Msa0711510
chr5_1 mRNA 3399051 3399683 3399051 ID=Msa0711510-mRNA-1;Parent=Msa0711510;Name=Msa0711510-mRNA-1;_AED=0.00;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|210
chr5_1 exon 3399051 3399683 3399051 ID=Msa0711510-mRNA-1:exon:1277;Parent=Msa0711510-mRNA-1
chr5_1 CDS 3399051 3399683 3399051 ID=Msa0711510-mRNA-1:cds;Parent=Msa0711510-mRNA-1
Gene Sequence

>Msa0711510

ATGGCAATGGCAACTCAAGCCTCTCTCTTCACTCCACCTCTCTCAAGCCCTAAACCATGGAAACAACCATCAACTTTATCCTTCATCTCTCTCAAACCCATCAAGTTCACAACAAGAACAACAAAAATCTCAGCTGCAGATGACAAAACAGAAGCAGCAGCACCAGTTGCAACAAAAGAAGAAGCTCCTGCTGCACCAGTTGGTTTCACTCCACCTGAACTAGACCCAAACACACCTTCACCAATCTTTGGAGGAAGCACTGGTGGTTTGTTACGTAAGGCACAAGTTGAAGAATTCTATGTGATCACATGGGAGTCACCTAAGGAACAAATCTTTGAGATGCCAACTGGTGGTGCAGCCATAATGAGAGAAGGTCCTAACCTTCTTAAGTTAGCAAGGAAAGAACAGTGTTTGGCTTTAGGAAATAGATTAAGGTCTAAGTACAAGATTAAGTATCAGTTTTACAGGGTTTTCCCTAATGGTGAGGTTCAATATTTGCATCCTAAGGATGGTGTGTACCCTGAGAAGGTTAACCCTGGTCGTGAAGGGGTTGGTCAGAATTTCAGGTCTATTGGTAAGAACGTTAGCCCAATTGAAGTTAAGTTTACTGGTAAGCAACCTTTTGATGTGTAA

Protein sequence

>Msa0711510

MAMATQASLFTPPLSSPKPWKQPSTLSFISLKPIKFTTRTTKISAADDKTEAAAPVATKEEAPAAPVGFTPPELDPNTPSPIFGGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGNRLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGREGVGQNFRSIGKNVSPIEVKFTGKQPFDV*