AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010331


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010331 MtrunA17_Chr2g0323271 90.558 233 19 2 1 230 1 233 1.04e-122 347
MsaG010331 MtrunA17_Chr2g0280901 47.917 144 48 2 1 144 1 117 1.60e-31 112
MsaG010331 MtrunA17_Chr2g0322971 52.542 59 28 0 3 61 29 87 1.57e-13 65.1
MsaG010331 MtrunA17_Chr4g0024021 50.847 59 29 0 5 63 36 94 9.86e-13 63.2
MsaG010331 MtrunA17_Chr4g0002211 50.000 66 33 0 3 68 6 71 2.30e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010331 AT4G27310.1 42.197 173 56 3 1 138 1 164 7.00e-36 127
MsaG010331 AT5G54470.1 47.059 187 78 4 2 188 3 168 4.50e-34 122
MsaG010331 AT3G21890.1 56.000 50 22 0 5 54 31 80 8.50e-11 58.2

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGCGGTATAGCGACGTAAA+TGG 0.305299 2:+71945544 MsaT010331.1:CDS
TTCACTTTCTTCTTGTTGCT+CGG 0.346480 2:-71945063 None:intergenic
TTCTTCTTGTTGCTCGGCGC+TGG 0.356031 2:-71945057 None:intergenic
GTGGATGAGGTTGATTTGAT+AGG 0.378300 2:+71945487 MsaT010331.1:CDS
TGAAGAAGATGGTGATAATC+AGG 0.403542 2:+71945148 MsaT010331.1:CDS
CGCATCGCCGCCTTTGACGA+CGG 0.405274 2:-71945523 None:intergenic
TTCCTCATCGGAATCGTAAT+CGG 0.408569 2:-71945111 None:intergenic
CTCGGCGCTGGCACCGGCGT+TGG 0.429781 2:-71945045 None:intergenic
ATGCTGGGACTGCGATTCTA+AGG 0.430981 2:+71944860 MsaT010331.1:CDS
CGTGGAAAGCCTCCGGTGCT+AGG 0.445561 2:+71944955 MsaT010331.1:CDS
TTGTTGCTCGGCGCTGGCAC+CGG 0.453269 2:-71945051 None:intergenic
CCGACCAGGCTAGCTTATGC+TGG 0.471766 2:+71944844 MsaT010331.1:CDS
CGCGTTACCGAGCCTAGCAC+CGG 0.516421 2:-71944967 None:intergenic
GCCAACGCTAACTCCAACGC+CGG 0.517678 2:+71945032 MsaT010331.1:CDS
CTCGTCCTCATCTTCCTCAT+CGG 0.523137 2:-71945123 None:intergenic
GACTCACAGAAAGTTCTAGC+TGG 0.526494 2:-71944822 None:intergenic
AGTCCCAGCATAAGCTAGCC+TGG 0.526991 2:-71944848 None:intergenic
ACCGGCGTTGGAGTTAGCGT+TGG 0.527253 2:-71945033 None:intergenic
GAGGACGAGGATGAAGAAGA+TGG 0.529527 2:+71945137 MsaT010331.1:CDS
AACTTTCTGTGAGTCCGACC+AGG 0.531925 2:+71944830 MsaT010331.1:CDS
CCACCGGCTTCTAGTTCCTC+CGG 0.538845 2:+71945203 MsaT010331.1:CDS
ACCGGAGGCTTTCCACGGCG+TGG 0.539884 2:-71944949 None:intergenic
TGGATGAGGTTGATTTGATA+GGG 0.541461 2:+71945488 MsaT010331.1:CDS
CCCACGCCGTGGAAAGCCTC+CGG 0.541657 2:+71944948 MsaT010331.1:CDS
CGATGAGGAAGATGAGGACG+AGG 0.544127 2:+71945124 MsaT010331.1:CDS
CGACGAGGAACCGTCGTCAA+AGG 0.547277 2:+71945513 MsaT010331.1:CDS
TTCCTCCGGTAGCGAAGAGT+CGG 0.547879 2:+71945217 MsaT010331.1:CDS
CGTCAAAGGCGGCGATGCGG+CGG 0.550222 2:+71945527 MsaT010331.1:CDS
AACAGCGGCGCAACCACCAC+CGG 0.553693 2:+71945187 MsaT010331.1:CDS
CGACCAGGCTAGCTTATGCT+GGG 0.557426 2:+71944845 MsaT010331.1:CDS
CATTCTCAGCCACACGATTG+AGG 0.570452 2:+71945574 MsaT010331.1:CDS
CGTAACCGACTCTTCGCTAC+CGG 0.573854 2:-71945222 None:intergenic
TCAACGAAGAGAGGTGGATG+AGG 0.575020 2:+71945474 MsaT010331.1:CDS
CGTTGGAGTTAGCGTTGGCG+TGG 0.586469 2:-71945028 None:intergenic
TCGTTGTGTGATAGATGCGC+CGG 0.591718 2:+71944993 MsaT010331.1:CDS
AAAGCCTCCGGTGCTAGGCT+CGG 0.592338 2:+71944960 MsaT010331.1:CDS
CCGGAGGCTTTCCACGGCGT+GGG 0.600004 2:-71944948 None:intergenic
CTAGCACCGGAGGCTTTCCA+CGG 0.603148 2:-71944954 None:intergenic
CCAGCATAAGCTAGCCTGGT+CGG 0.605872 2:-71944844 None:intergenic
CGGTAGCGAAGAGTCGGTTA+CGG 0.606860 2:+71945223 MsaT010331.1:CDS
CGAGGAACCGTCGTCAAAGG+CGG 0.613549 2:+71945516 MsaT010331.1:CDS
CTACCGGAGGAACTAGAAGC+CGG 0.616312 2:-71945206 None:intergenic
CGATTCCGATGAGGAAGATG+AGG 0.616964 2:+71945118 MsaT010331.1:CDS
GAGGAACTAGAAGCCGGTGG+TGG 0.618905 2:-71945200 None:intergenic
GAGATTGACATGCGTGACAG+AGG 0.627483 2:-71944926 None:intergenic
CGTCGTCAAAGGCGGCGATG+CGG 0.629213 2:+71945524 MsaT010331.1:CDS
GTATAGCGACGTAAATGGAA+CGG 0.632422 2:+71945549 MsaT010331.1:CDS
AACCGACTCTTCGCTACCGG+AGG 0.640395 2:-71945219 None:intergenic
CATGTCAATCTCCCACGCCG+TGG 0.644127 2:+71944937 MsaT010331.1:CDS
GTTACCGAGCCTAGCACCGG+AGG 0.644615 2:-71944964 None:intergenic
ATAGTACGGCCTCAATCGTG+TGG 0.647407 2:-71945583 None:intergenic
GTGATAATCAGGTTGTTCCG+TGG 0.650569 2:+71945159 MsaT010331.1:CDS
TTGTGTGATAGATGCGCCGG+CGG 0.662123 2:+71944996 MsaT010331.1:CDS
GAGCAACAAGAAGAAAGTGA+AGG 0.680813 2:+71945065 MsaT010331.1:CDS
TGCGCCGCTGTTGATGACCA+CGG 0.694509 2:-71945176 None:intergenic
CACCGATTACGATTCCGATG+AGG 0.696165 2:+71945109 MsaT010331.1:CDS
CCGGAGGAACTAGAAGCCGG+TGG 0.696282 2:-71945203 None:intergenic
TGATTTGATAGGGTGCGACG+AGG 0.704245 2:+71945498 MsaT010331.1:CDS
TGTTCCGTGGTCATCAACAG+CGG 0.708011 2:+71945172 MsaT010331.1:CDS
GTGCAACGATAACCACGATG+AGG 0.723607 2:+71945253 MsaT010331.1:CDS
ACTTAGAAATAACCTCATCG+TGG 0.742114 2:-71945265 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 71944792 71945594 71944792 ID=MsaG010331
Chr2 mRNA 71944792 71945594 71944792 ID=MsaT010331.1;Parent=MsaG010331
Chr2 exon 71944792 71945337 71944792 ID=MsaT010331.1.exon1;Parent=MsaT010331.1
Chr2 CDS 71944792 71945337 71944792 ID=cds.MsaT010331.1;Parent=MsaT010331.1
Chr2 exon 71945448 71945594 71945448 ID=MsaT010331.1.exon2;Parent=MsaT010331.1
Chr2 CDS 71945448 71945594 71945448 ID=cds.MsaT010331.1;Parent=MsaT010331.1
Gene Sequence

>MsaT010331.1

ATGAAAAAGAACTGCGAACTCTGCAAGCTTCCAGCTAGAACTTTCTGTGAGTCCGACCAGGCTAGCTTATGCTGGGACTGCGATTCTAAGGTCCACGCTGCTAACTTTTTGGTTGAGAGACACATGAGAACTCTCCTCTGTCACGCATGTCAATCTCCCACGCCGTGGAAAGCCTCCGGTGCTAGGCTCGGTAACGCGCTTTCGTTGTGTGATAGATGCGCCGGCGGAAGAAAACTCCACGCCAACGCTAACTCCAACGCCGGTGCCAGCGCCGAGCAACAAGAAGAAAGTGAAGGTGACAATGACAATGAAGAAGACACCGATTACGATTCCGATGAGGAAGATGAGGACGAGGATGAAGAAGATGGTGATAATCAGGTTGTTCCGTGGTCATCAACAGCGGCGCAACCACCACCGGCTTCTAGTTCCTCCGGTAGCGAAGAGTCGGTTACGGTTAGCAAGTGCAACGATAACCACGATGAGGTTATTTCTAAGTTAGTTACAACGATTTCTTTGAAACGACGTCGTTTAGATCATGATTTTCAGGTTACGGATTCAAAAAATTGGAAAAATCAACGAAGAGAGGTGGATGAGGTTGATTTGATAGGGTGCGACGAGGAACCGTCGTCAAAGGCGGCGATGCGGCGGTATAGCGACGTAAATGGAACGGAGCATTCTCAGCCACACGATTGA

Protein sequence

>MsaT010331.1

MKKNCELCKLPARTFCESDQASLCWDCDSKVHAANFLVERHMRTLLCHACQSPTPWKASGARLGNALSLCDRCAGGRKLHANANSNAGASAEQQEESEGDNDNEEDTDYDSDEEDEDEDEEDGDNQVVPWSSTAAQPPPASSSSGSEESVTVSKCNDNHDEVISKLVTTISLKRRRLDHDFQVTDSKNWKNQRREVDEVDLIGCDEEPSSKAAMRRYSDVNGTEHSQPHD*