AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000271


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000271 MtrunA17_Chr1g0168571 49.405 336 124 11 1 315 1 311 1.18e-90 273
MsaG000271 MtrunA17_Chr7g0274971 66.500 200 60 1 1 193 1 200 6.04e-87 260
MsaG000271 MtrunA17_Chr1g0174911 43.516 347 126 9 1 315 1 309 2.13e-81 249
MsaG000271 MtrunA17_Chr7g0263931 35.036 137 80 4 11 145 17 146 6.40e-16 77.4
MsaG000271 MtrunA17_Chr4g0047841 31.361 169 103 5 11 177 21 178 2.22e-14 72.8
MsaG000271 MtrunA17_Chr7g0214071 32.593 135 79 4 11 143 21 145 5.49e-13 67.8
MsaG000271 MtrunA17_Chr2g0318101 32.353 136 83 4 11 144 21 149 1.08e-12 68.2
MsaG000271 MtrunA17_Chr8g0385991 31.469 143 78 5 11 146 20 149 2.70e-12 65.5
MsaG000271 MtrunA17_Chr2g0326361 32.558 129 78 4 11 137 20 141 5.70e-12 65.5
MsaG000271 MtrunA17_Chr6g0461661 32.432 185 108 7 11 185 24 201 1.02e-11 65.1
MsaG000271 MtrunA17_Chr8g0384721 34.884 129 72 5 11 137 13 131 1.51e-11 63.9
MsaG000271 MtrunA17_Chr5g0417001 32.432 148 82 6 11 152 20 155 2.58e-11 63.9
MsaG000271 MtrunA17_Chr8g0372121 30.625 160 101 6 11 168 12 163 2.67e-11 63.5
MsaG000271 MtrunA17_Chr4g0042561 32.558 129 76 5 11 137 15 134 3.66e-11 62.8
MsaG000271 MtrunA17_Chr5g0417791 33.333 129 75 5 11 137 9 128 3.69e-11 62.8
MsaG000271 MtrunA17_Chr2g0318081 33.333 141 75 5 11 145 22 149 8.80e-11 62.4
MsaG000271 MtrunA17_Chr3g0124761 34.351 131 70 7 11 137 13 131 9.22e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000271 AT3G15510.1 33.333 129 77 4 11 137 23 144 2.92e-13 70.1
MsaG000271 AT5G13180.1 34.884 129 72 4 11 137 20 138 4.97e-13 68.2
MsaG000271 AT5G62380.2 34.615 130 77 5 11 138 13 136 5.41e-13 69.3
MsaG000271 AT5G62380.1 34.615 130 77 5 11 138 13 136 5.41e-13 69.3
MsaG000271 AT1G77450.1 35.878 131 68 7 11 137 16 134 3.72e-12 65.9
MsaG000271 AT1G61110.1 32.051 156 95 6 11 164 22 168 8.97e-12 65.5
MsaG000271 AT5G08790.1 29.767 215 120 10 11 214 13 207 4.03e-11 63.2
MsaG000271 AT3G04070.2 33.088 136 79 6 11 141 16 144 9.40e-11 62.4
MsaG000271 AT3G04070.1 33.088 136 79 6 11 141 16 144 9.67e-11 62.8

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAGTTGATTTCTTGAATT+TGG 0.031453 1:+3659969 None:intergenic
CCACCATTTGATTGACATTT+TGG 0.104866 1:+3661511 None:intergenic
GTTCTTGAATATGATTTATT+TGG 0.182094 1:-3664164 MsaT000271.1:CDS
CAAAGAATCCTTGGGAGATT+TGG 0.196255 1:-3664136 MsaT000271.1:CDS
AGTGGGAGATTTCTTCTTTA+AGG 0.222616 1:+3664058 None:intergenic
CCAGAAAAGACCGTGGTTCT+TGG 0.260366 1:-3661457 MsaT000271.1:CDS
AATTGTAAACTTTATTGTAT+AGG 0.273041 1:+3664210 None:intergenic
AAAGAATCCTTGGGAGATTT+GGG 0.318962 1:-3664135 MsaT000271.1:CDS
TGGAAATATCAAGATTGATT+TGG 0.320688 1:-3659943 MsaT000271.1:CDS
CAAGTTGATTTCTTGAATTT+GGG 0.346015 1:+3659970 None:intergenic
TTGATTCGTACAATTGGAAT+TGG 0.348604 1:-3664026 MsaT000271.1:CDS
TTCAAGAACATTGATATAGT+TGG 0.354618 1:+3664178 None:intergenic
TCATCAAGTGAGAATTTGAT+TGG 0.398760 1:+3663532 None:intergenic
AAACGCTTGATTCGTACAAT+TGG 0.407900 1:-3664032 MsaT000271.1:CDS
TTGGTATCACAAAGAATCCT+TGG 0.412757 1:-3664145 MsaT000271.1:CDS
ATCTTTGATTAACAATGCTT+CGG 0.415664 1:-3663859 MsaT000271.1:intron
TAGCAATGTTTGCCAGGATT+GGG 0.417981 1:+3659756 None:intergenic
ATAGCAATGTTTGCCAGGAT+TGG 0.423974 1:+3659755 None:intergenic
TCAAGAACATTGATATAGTT+GGG 0.434618 1:+3664179 None:intergenic
AGTATGGTAACTTACAGATA+TGG 0.443956 1:+3663452 None:intergenic
AATCAAATGGTGGCCACAAA+AGG 0.456926 1:-3661501 MsaT000271.1:CDS
GAACCAAAATGTCAATCAAA+TGG 0.458333 1:-3661514 MsaT000271.1:CDS
TCAAGAAATCAACTTGATAG+TGG 0.460070 1:-3659963 MsaT000271.1:CDS
TAAACATAGCAATGTTTGCC+AGG 0.462499 1:+3659750 None:intergenic
CAAGGAAAGACAGTTGTTCC+CGG 0.469375 1:-3663489 MsaT000271.1:CDS
ACAAATAATACTTACAATGT+TGG 0.484031 1:+3661420 None:intergenic
ATGAAGATGGTGATATCTCT+TGG 0.494027 1:-3659854 MsaT000271.1:CDS
ACGAATCAAGCGTTTACTAG+TGG 0.496910 1:+3664040 None:intergenic
GGAGAAAGGTGGGAAATACT+TGG 0.497376 1:-3661480 MsaT000271.1:CDS
TGGTATCACAAAGAATCCTT+GGG 0.502644 1:-3664144 MsaT000271.1:CDS
ATTGAAATGATTCCCAATCC+TGG 0.512846 1:-3659768 MsaT000271.1:CDS
TGAATAGCATTGGACAAGAT+AGG 0.516694 1:-3663512 MsaT000271.1:CDS
AAGAGTAACACTTCTGAAGA+TGG 0.525582 1:-3663915 MsaT000271.1:CDS
AGTATAGTTGACAAAGAGAC+TGG 0.529604 1:-3663975 MsaT000271.1:CDS
ATTATAAACAAAGATGAAGA+TGG 0.538976 1:-3659867 MsaT000271.1:CDS
TCTCACTTGATGAATAGCAT+TGG 0.540753 1:-3663522 MsaT000271.1:CDS
AGGAAGGTTAATCGAAGAGG+AGG 0.555973 1:-3659793 MsaT000271.1:CDS
AACTCTTCCCAAATCTCCCA+AGG 0.556547 1:+3664128 None:intergenic
CGAAGAAGTTCACCATCTGT+AGG 0.564532 1:+3664239 None:intergenic
CGAATCAAGCGTTTACTAGT+GGG 0.567217 1:+3664041 None:intergenic
GAACTCATAGAGGCGAATGA+AGG 0.573007 1:-3659813 MsaT000271.1:CDS
TTTAGGACATCATTGTTTCG+AGG 0.573378 1:-3661552 MsaT000271.1:intron
AAAGAGACTGGCCAAACCCT+AGG 0.583006 1:-3663963 MsaT000271.1:CDS
ACACTTCTGAAGATGGTGGA+TGG 0.587791 1:-3663908 MsaT000271.1:CDS
TGGTGGCCACAAAAGGAGAA+AGG 0.590211 1:-3661494 MsaT000271.1:CDS
ACATTGATATAGTTGGGCAC+TGG 0.596165 1:+3664185 None:intergenic
GGCCACAAAAGGAGAAAGGT+GGG 0.607433 1:-3661490 MsaT000271.1:CDS
GACAGTTGTTCCCGGACCTG+CGG 0.611545 1:-3663481 MsaT000271.1:CDS
TCATAGAGGCGAATGAAGGA+AGG 0.619859 1:-3659809 MsaT000271.1:CDS
TGTTAATCAAAGATATGTCA+AGG 0.619881 1:+3663868 None:intergenic
GTACAATTGGAATTGGTACG+TGG 0.632001 1:-3664019 MsaT000271.1:CDS
AGTAACACTTCTGAAGATGG+TGG 0.632536 1:-3663912 MsaT000271.1:CDS
AGCATTGGACAAGATAGGCA+AGG 0.636618 1:-3663507 MsaT000271.1:CDS
CCAAAATGTCAATCAAATGG+TGG 0.636763 1:-3661511 MsaT000271.1:CDS
TGGCCACAAAAGGAGAAAGG+TGG 0.638854 1:-3661491 MsaT000271.1:CDS
AAGTGTTACTCTTCTCAAAG+CGG 0.648652 1:+3663925 None:intergenic
TGAAGGAAGGTTAATCGAAG+AGG 0.648808 1:-3659796 MsaT000271.1:CDS
TACAATTGGAATTGGTACGT+GGG 0.659468 1:-3664018 MsaT000271.1:CDS
ACGTGGGAAGCTGAAGACAC+CGG 0.664319 1:-3664002 MsaT000271.1:CDS
AGCTTTAAGTCCAAGAACCA+CGG 0.675233 1:+3661447 None:intergenic
TAAAAGTGCCAATACGACAG+AGG 0.688062 1:-3659919 MsaT000271.1:CDS
TACTTGGCCAGAAAAGACCG+TGG 0.736153 1:-3661464 MsaT000271.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 3659749 3664297 3659749 ID=MsaG000271
Chr1 mRNA 3659749 3664297 3659749 ID=MsaT000271.1;Parent=MsaG000271
Chr1 exon 3659749 3660003 3659749 ID=MsaT000271.1.exon4;Parent=MsaT000271.1
Chr1 CDS 3659749 3660003 3659749 ID=cds.MsaT000271.1;Parent=MsaT000271.1
Chr1 exon 3661435 3661569 3661435 ID=MsaT000271.1.exon3;Parent=MsaT000271.1
Chr1 CDS 3661435 3661569 3661435 ID=cds.MsaT000271.1;Parent=MsaT000271.1
Chr1 exon 3663467 3663607 3663467 ID=MsaT000271.1.exon2;Parent=MsaT000271.1
Chr1 CDS 3663467 3663607 3663467 ID=cds.MsaT000271.1;Parent=MsaT000271.1
Chr1 exon 3663860 3664297 3663860 ID=MsaT000271.1.exon1;Parent=MsaT000271.1
Chr1 CDS 3663860 3664297 3663860 ID=cds.MsaT000271.1;Parent=MsaT000271.1
Gene Sequence

>MsaT000271.1

ATGGCTCACAATTCTCGATCAAGTAAAAATTTCAAACCTACAGATGGTGAACTTCTTCGATCATTCCTATACAATAAAGTTTACAATTTACCAGTGCCCAACTATATCAATGTTCTTGAATATGATTTATTTGGTATCACAAAGAATCCTTGGGAGATTTGGGAAGAGTTTTCAAGTTCTCACTCATATCATGAAAAAGACTTTTATTTCTTCACTACCTTAAAGAAGAAATCTCCCACTAGTAAACGCTTGATTCGTACAATTGGAATTGGTACGTGGGAAGCTGAAGACACCGGAAAAAGTATAGTTGACAAAGAGACTGGCCAAACCCTAGGACTAAAAAAACGTTTCCGCTTTGAGAAGAGTAACACTTCTGAAGATGGTGGATGGATCTTGCATGAATATAGCCTTGACATATCTTTGATTAACAATGCTTCGATTCAGAAAGAATTTGAAACCCAATCCAAAAATACAGAAAAAAGAATCGATAACCAATCAAATTCTCACTTGATGAATAGCATTGGACAAGATAGGCAAGGAAAGACAGTTGTTCCCGGACCTGCGGAAAACGCCATATCTGACATCATTGTTTCGAGGAAATTTGTTCATGAAGAACCAAAATGTCAATCAAATGGTGGCCACAAAAGGAGAAAGGTGGGAAATACTTGGCCAGAAAAGACCGTGGTTCTTGGACTTAAAGCTATCACCAACATTGAAAATCTTGACCCAAATTCAAGAAATCAACTTGATAGTGGAAATATCAAGATTGATTTGGTTAAAAGTGCCAATACGACAGAGGAAAAATCTAACAAAGAAGATGGTGATCATATTATAAACAAAGATGAAGATGGTGATATCTCTTGGCCTGAGCTTTTTGCAAGGGAACTCATAGAGGCGAATGAAGGAAGGTTAATCGAAGAGGAGGATATTGAAATGATTCCCAATCCTGGCAAACATTGCTATGTTTAA

Protein sequence

>MsaT000271.1

MAHNSRSSKNFKPTDGELLRSFLYNKVYNLPVPNYINVLEYDLFGITKNPWEIWEEFSSSHSYHEKDFYFFTTLKKKSPTSKRLIRTIGIGTWEAEDTGKSIVDKETGQTLGLKKRFRFEKSNTSEDGGWILHEYSLDISLINNASIQKEFETQSKNTEKRIDNQSNSHLMNSIGQDRQGKTVVPGPAENAISDIIVSRKFVHEEPKCQSNGGHKRRKVGNTWPEKTVVLGLKAITNIENLDPNSRNQLDSGNIKIDLVKSANTTEEKSNKEDGDHIINKDEDGDISWPELFARELIEANEGRLIEEEDIEMIPNPGKHCYV*