AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014978

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014978 MtrunA17_Chr8g0351751 56.934 137 48 4 54 188 114 241 1.23e-41 140
MsaG014978 MtrunA17_Chr8g0351751 81.395 43 8 0 1 43 1 43 1.96e-17 77.4
MsaG014978 MtrunA17_Chr4g0014321 39.738 229 62 6 1 171 1 211 1.46e-40 137
MsaG014978 MtrunA17_Chr4g0013041 36.486 222 48 5 1 164 1 187 4.02e-32 114
MsaG014978 MtrunA17_Chr4g0014131 41.379 232 54 6 1 171 1 211 1.99e-30 111
MsaG014978 MtrunA17_Chr4g0014031 43.846 130 53 3 42 171 100 209 1.43e-25 98.6
MsaG014978 MtrunA17_Chr3g0110131 36.585 246 87 6 1 188 1 235 1.04e-22 91.3
MsaG014978 MtrunA17_Chr3g0107381 36.129 155 40 3 1 97 1 154 6.43e-22 88.6
MsaG014978 MtrunA17_Chr4g0014121 42.500 160 34 2 1 102 29 188 4.38e-20 83.2
MsaG014978 MtrunA17_Chr5g0420351 35.484 155 42 3 1 98 1 154 5.79e-17 74.3
MsaG014978 MtrunA17_Chr2g0296851 60.784 51 20 0 50 100 35 85 6.76e-16 69.7
MsaG014978 MtrunA17_Chr1g0188681 78.049 41 9 0 1 41 1 41 1.75e-14 67.8
MsaG014978 MtrunA17_Chr3g0107351 78.049 41 9 0 3 43 2 42 1.37e-13 65.5
MsaG014978 MtrunA17_Chr3g0107361 78.049 41 9 0 3 43 2 42 2.00e-13 65.1
MsaG014978 MtrunA17_Chr2g0283941 67.442 43 14 0 1 43 1 43 2.06e-13 66.2
MsaG014978 MtrunA17_Chr3g0107331 76.923 39 9 0 3 41 2 40 2.70e-13 64.7
MsaG014978 MtrunA17_Chr1g0197321 30.573 157 52 2 1 100 1 157 3.31e-13 64.3
MsaG014978 MtrunA17_Chr1g0197261 73.171 41 11 0 1 41 1 41 3.35e-13 64.3
MsaG014978 MtrunA17_Chr1g0197461 74.359 39 10 0 3 41 2 40 3.79e-13 63.9
MsaG014978 MtrunA17_Chr3g0107341 75.610 41 10 0 3 43 2 42 1.90e-12 62.4
MsaG014978 MtrunA17_Chr5g0432691 65.116 43 15 0 1 43 1 43 7.28e-12 60.8
MsaG014978 MtrunA17_Chr7g0218151 35.294 153 41 3 1 96 1 152 2.14e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014978 AT3G05860.2 60.465 43 17 0 1 43 1 43 8.09e-12 62.0
MsaG014978 AT3G05860.1 60.465 43 17 0 1 43 1 43 8.28e-12 62.4
MsaG014978 AT3G05860.3 60.465 43 17 0 1 43 1 43 9.14e-12 62.4

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCACCCTTTGTGGAATTA+AGG 0.222716 3:-81001981 MsaT014978.1:intron
GAAGAAGGGTTTGTTGAAAA+AGG 0.237128 3:-81002014 MsaT014978.1:CDS
TTGGTAGAAGATTGGAAGTT+GGG 0.389218 3:-81001635 MsaT014978.1:CDS
GACATTGGTAGTGATAATAT+TGG 0.398995 3:-81001612 MsaT014978.1:CDS
GAAGGACATTGGTAGAAGAT+TGG 0.413363 3:-81001643 MsaT014978.1:CDS
AGATTGGAAGTTGGGGACAT+TGG 0.426650 3:-81001627 MsaT014978.1:CDS
GTTGATTGAGCAGAAATTGA+AGG 0.441981 3:-81001661 MsaT014978.1:CDS
GACGAATTAACCACCCTTTG+TGG 0.444921 3:-81001989 MsaT014978.1:CDS
TTTATGGATTCAATTATGAA+TGG 0.453065 3:-81001423 MsaT014978.1:CDS
GATTGACATCGACGACCAAA+TGG 0.467955 3:+81001382 None:intergenic
GTGCCATTTGAAGATGGACT+TGG 0.475733 3:+81001550 None:intergenic
TAAGATGAGACAATTCCATT+TGG 0.478138 3:-81001397 MsaT014978.1:CDS
ATTGGTAGAAGATTGGAAGT+TGG 0.478722 3:-81001636 MsaT014978.1:CDS
CATTGCAACTTCATCATTCA+CGG 0.484599 3:+81001506 None:intergenic
ATAAACCTTAATTCCACAAA+GGG 0.491675 3:+81001976 None:intergenic
TGATGGGTCATGACCATGTT+GGG 0.504009 3:-81001485 MsaT014978.1:CDS
GAATGATGAAGTTGCAATGA+TGG 0.507137 3:-81001502 MsaT014978.1:CDS
AGATGGACTTGGCTTGAAGT+TGG 0.507429 3:+81001561 None:intergenic
AACATACAAGAAGAGGAAGA+AGG 0.516645 3:-81002029 MsaT014978.1:CDS
AAGCCAAGTCCATCTTCAAA+TGG 0.524456 3:-81001553 MsaT014978.1:CDS
CTGATGTGAAAGATCTTGCT+TGG 0.534421 3:-81001683 MsaT014978.1:CDS
ACGGGTGTTACTTGTGGTGG+TGG 0.535665 3:+81001525 None:intergenic
TCATTCACGGGTGTTACTTG+TGG 0.538952 3:+81001519 None:intergenic
ATGTTTCAATGTCTCAGTGC+AGG 0.544015 3:-81001735 MsaT014978.1:CDS
GGAAAGCAACATACAAGAAG+AGG 0.545503 3:-81002036 MsaT014978.1:CDS
ACATACAAGAAGAGGAAGAA+GGG 0.548358 3:-81002028 MsaT014978.1:CDS
ATGACCATGTTGGGATGACT+AGG 0.548484 3:-81001476 MsaT014978.1:CDS
GGTGTTACTTGTGGTGGTGG+TGG 0.551469 3:+81001528 None:intergenic
GAGCAGAAATTGAAGGACAT+TGG 0.552794 3:-81001654 MsaT014978.1:CDS
GTGGTGGTGCCATTTGAAGA+TGG 0.552926 3:+81001544 None:intergenic
AACCTTAATTCCACAAAGGG+TGG 0.569502 3:+81001979 None:intergenic
ATTGCAACTTCATCATTCAC+GGG 0.570753 3:+81001507 None:intergenic
TCATTGTCAACGATGGTGCA+AGG 0.579133 3:-81002057 MsaT014978.1:CDS
CTTGCTTTCATTGTCAACGA+TGG 0.587469 3:-81002064 MsaT014978.1:CDS
TTCACGGGTGTTACTTGTGG+TGG 0.604040 3:+81001522 None:intergenic
CATAAACCTTAATTCCACAA+AGG 0.606931 3:+81001975 None:intergenic
TGGTAGAAGATTGGAAGTTG+GGG 0.608825 3:-81001634 MsaT014978.1:CDS
AATGATGAAGTTGCAATGAT+GGG 0.613794 3:-81001501 MsaT014978.1:CDS
ATGATGGGTCATGACCATGT+TGG 0.650496 3:-81001486 MsaT014978.1:CDS
GAAGCAAACGAAAGACAATG+AGG 0.652355 3:-81001778 MsaT014978.1:CDS
AATTCCTAGTCATCCCAACA+TGG 0.661302 3:+81001472 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 81001365 81002107 81001365 ID=MsaG014978
Chr3 mRNA 81001365 81002107 81001365 ID=MsaT014978.1;Parent=MsaG014978
Chr3 exon 81001365 81001805 81001365 ID=MsaT014978.1.exon2;Parent=MsaT014978.1
Chr3 CDS 81001365 81001805 81001365 ID=cds.MsaT014978.1;Parent=MsaT014978.1
Chr3 exon 81001982 81002107 81001982 ID=MsaT014978.1.exon1;Parent=MsaT014978.1
Chr3 CDS 81001982 81002107 81001982 ID=cds.MsaT014978.1;Parent=MsaT014978.1
Gene Sequence

>MsaT014978.1

ATGACTAGAAAAAAGGTGAAACTTGCTTTCATTGTCAACGATGGTGCAAGGAAAGCAACATACAAGAAGAGGAAGAAGGGTTTGTTGAAAAAGGTTGACGAATTAACCACCCTTTGTGGAATTAAGGTAAAGAAGCAAACGAAAGACAATGAGGAGAAAGAGATGACAATTCTCATGTTTCAATGTCTCAGTGCAGGTAAAATTGTGCACAACAATATGTCAACGACTGATGTGAAAGATCTTGCTTGGTTGATTGAGCAGAAATTGAAGGACATTGGTAGAAGATTGGAAGTTGGGGACATTGGTAGTGATAATATTGGACAAAGTCAAAGTCAAATCATGACGATTCCAACTTCAAGCCAAGTCCATCTTCAAATGGCACCACCACCACCACAAGTAACACCCGTGAATGATGAAGTTGCAATGATGGGTCATGACCATGTTGGGATGACTAGGAATTATGCTGACATCATGCAAAGACAGTTTTTTATGGATTCAATTATGAATGGCAATAAGATGAGACAATTCCATTTGGTCGTCGATGTCAATCTTCAAAATCGATTTTGA
Protein sequence

>MsaT014978.1

MTRKKVKLAFIVNDGARKATYKKRKKGLLKKVDELTTLCGIKVKKQTKDNEEKEMTILMFQCLSAGKIVHNNMSTTDVKDLAWLIEQKLKDIGRRLEVGDIGSDNIGQSQSQIMTIPTSSQVHLQMAPPPPQVTPVNDEVAMMGHDHVGMTRNYADIMQRQFFMDSIMNGNKMRQFHLVVDVNLQNRF*