AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024844

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024844 MtrunA17_Chr5g0394631 85.204 196 24 3 1 193 208 401 1.03e-111 334
MsaG024844 MtrunA17_Chr5g0394631 66.298 181 56 2 9 184 1 181 3.46e-71 230
MsaG024844 MtrunA17_Chr5g0394621 70.526 190 51 2 9 193 1 190 7.73e-86 260
MsaG024844 MtrunA17_Chr1g0204951 61.538 182 63 4 16 193 12 190 3.81e-71 223
MsaG024844 MtrunA17_Chr1g0204971 59.659 176 66 3 20 193 18 190 1.57e-68 216
MsaG024844 MtrunA17_Chr7g0223361 45.349 172 89 3 20 190 3 170 1.78e-39 140
MsaG024844 MtrunA17_Chr7g0231401 38.202 178 108 2 217 393 335 511 1.82e-37 144
MsaG024844 MtrunA17_Chr7g0223351 44.379 169 86 4 24 190 7 169 3.50e-37 134
MsaG024844 MtrunA17_Chr2g0322881 37.640 178 109 2 217 393 392 568 8.19e-36 139
MsaG024844 MtrunA17_Chr7g0273661 43.312 157 83 3 21 175 4 156 5.49e-35 127
MsaG024844 MtrunA17_Chr2g0295031 52.593 135 23 1 344 437 1 135 4.03e-34 124
MsaG024844 MtrunA17_Chr2g0310491 38.816 152 91 2 243 393 1 151 2.66e-31 120
MsaG024844 MtrunA17_Chr7g0216041 38.816 152 91 2 243 393 1 151 2.74e-31 120
MsaG024844 MtrunA17_Chr8g0345501 32.620 187 109 7 215 391 462 641 4.19e-17 84.0
MsaG024844 MtrunA17_Chr5g0414621 31.313 198 110 7 214 394 815 1003 2.85e-14 75.5
MsaG024844 MtrunA17_Chr7g0216011 39.326 89 52 2 243 330 1 88 2.63e-13 65.5
MsaG024844 MtrunA17_Chr3g0086081 28.177 181 117 5 216 391 43 215 8.85e-12 66.2
MsaG024844 MtrunA17_Chr4g0013531 40.541 74 42 2 243 315 1 73 2.33e-11 59.3
MsaG024844 MtrunA17_Chr4g0039731 31.844 179 115 4 216 390 220 395 2.78e-11 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024844 AT2G32030.1 48.705 193 86 6 1 190 3 185 2.31e-50 169
MsaG024844 AT2G32020.1 52.071 169 71 5 25 190 19 180 2.90e-49 166
MsaG024844 AT3G22560.1 38.857 175 99 4 20 190 2 172 1.81e-30 116

Find 89 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCCATCTGGTTTCCCTTT+TGG 0.170423 5:+1396020 None:intergenic
TTGTTGATGTGGATAATTTA+AGG 0.203228 5:-1398411 MsaT024844.1:CDS
TGAAACAGTTGGAGGTTAAA+TGG 0.204653 5:-1396292 MsaT024844.1:CDS
CAAATCAATGATCTCTTCTT+TGG 0.204931 5:+1398798 None:intergenic
AATTGACAATGATATTTATA+TGG 0.247121 5:-1395815 MsaT024844.1:CDS
AACAAGAAGGGGCGCATATT+TGG 0.259894 5:-1395775 MsaT024844.1:CDS
GTTGATGCCTTGGTCTTTGC+TGG 0.262298 5:+1398675 None:intergenic
GCTTGAAGCCTTTCCAAGTA+TGG 0.276638 5:+1398436 None:intergenic
TGCCATAACGATCATGCTAT+TGG 0.288303 5:-1398607 MsaT024844.1:CDS
TGAATTGAAGTGTTCATATT+AGG 0.290831 5:+1395559 None:intergenic
TCTATGCACTCTAGCAGATA+TGG 0.296666 5:+1396184 None:intergenic
GCAGAACTTGGGTATGTTCT+AGG 0.307665 5:-1398532 MsaT024844.1:CDS
ATGTTCTAGGCTCTAAATAC+TGG 0.313478 5:-1398519 MsaT024844.1:CDS
CCTTGGTCTTTGCTGGTGTA+AGG 0.327596 5:+1398682 None:intergenic
CCATTATCGCCTACTCCTTC+CGG 0.358220 5:+1395535 None:intergenic
CCGGAAGGAGTAGGCGATAA+TGG 0.360008 5:-1395535 MsaT024844.1:CDS
CTATGACTAATAAACAAAAT+AGG 0.370881 5:-1396244 MsaT024844.1:CDS
AAGGGGCGCATATTTGGATT+AGG 0.373630 5:-1395769 MsaT024844.1:CDS
TCGATAGCTTTCTTCTCGTT+AGG 0.382657 5:+1396946 None:intergenic
GTTCGTAGTGGTTATGATAA+AGG 0.385049 5:-1396335 MsaT024844.1:CDS
GAAAAGATCGGAGTGTGATT+TGG 0.386444 5:+1398773 None:intergenic
CGATAGCTTTCTTCTCGTTA+GGG 0.387025 5:+1396947 None:intergenic
GATATTTATATGGAAATTGT+TGG 0.391812 5:-1395805 MsaT024844.1:CDS
GTTTCTCAAACGTTTGAGTT+TGG 0.397323 5:+1395881 None:intergenic
ACCTCGATGATCTCATGGTT+TGG 0.401354 5:-1398741 MsaT024844.1:CDS
AACCACTACGAACCTTGAAC+AGG 0.405679 5:+1396345 None:intergenic
GAGCGCTTGGAGCAAATGAT+TGG 0.408396 5:-1395592 MsaT024844.1:CDS
GGCTCTAAATACTGGGGTAA+AGG 0.409375 5:-1398511 MsaT024844.1:CDS
ATTCAGTGAATTTCCATACT+TGG 0.413337 5:-1398449 MsaT024844.1:CDS
GACAAAGTTCATAGACCAAA+AGG 0.414636 5:-1396035 MsaT024844.1:CDS
GAAACAGTTGGAGGTTAAAT+GGG 0.415071 5:-1396291 MsaT024844.1:CDS
GCCATAACGATCATGCTATT+GGG 0.423146 5:-1398606 MsaT024844.1:CDS
TTCTGACCTCGATGATCTCA+TGG 0.433346 5:-1398746 MsaT024844.1:CDS
GCTCTAAATACTGGGGTAAA+GGG 0.442106 5:-1398510 MsaT024844.1:CDS
TGAGTTCACTTGATGATAAG+AGG 0.442621 5:-1398567 MsaT024844.1:CDS
CAAAGAGTAGTTGAGAAAGT+TGG 0.450786 5:-1398385 MsaT024844.1:CDS
AGGATCGCATGTGCAGAACT+TGG 0.454084 5:-1398544 MsaT024844.1:CDS
CAAAATAGGCAGTCTAAAGT+TGG 0.454140 5:-1396230 MsaT024844.1:CDS
ACCCAATAGCATGATCGTTA+TGG 0.457877 5:+1398605 None:intergenic
GTTTCATTAAACCACCCATC+TGG 0.467331 5:+1396008 None:intergenic
TTAGAGAGTGGAATTGGATA+GGG 0.471643 5:-1396081 MsaT024844.1:intron
CTACTGATCTTAAACTAATG+AGG 0.474389 5:-1398282 MsaT024844.1:CDS
TTTAGAGAGTGGAATTGGAT+AGG 0.476342 5:-1396082 MsaT024844.1:intron
GTAAGGTTCACCCCAGAACT+TGG 0.480302 5:+1398699 None:intergenic
TAAACTAATGAGGATGTTCA+AGG 0.483858 5:-1398272 MsaT024844.1:intron
GTGAATTTCCATACTTGGAA+AGG 0.490341 5:-1398444 MsaT024844.1:CDS
AAGAAACGCTAAAGCGAAGA+TGG 0.490538 5:-1395614 MsaT024844.1:CDS
TGCTGTGAAACAAATGGTTA+AGG 0.500098 5:-1398476 MsaT024844.1:CDS
TTAAATGGGAAGAAGAGAAA+TGG 0.501205 5:-1396277 MsaT024844.1:CDS
TGTTGGAGGCATTAACAAGA+AGG 0.515610 5:-1395788 MsaT024844.1:CDS
GTGGTTATGATAAAGGTGAA+TGG 0.516490 5:-1396328 MsaT024844.1:CDS
ATTTATATGGAAATTGTTGG+AGG 0.522832 5:-1395802 MsaT024844.1:CDS
TCATTGTCAATTTCTTCAGT+AGG 0.525205 5:+1395826 None:intergenic
AGCGCTTGGAGCAAATGATT+GGG 0.526657 5:-1395591 MsaT024844.1:CDS
TGTTCTAGGCTCTAAATACT+GGG 0.526941 5:-1398518 MsaT024844.1:CDS
TAAAGCGAAGATGGAGCGCT+TGG 0.527516 5:-1395605 MsaT024844.1:CDS
TATGAACACTTCAATTCAGC+CGG 0.533653 5:-1395554 MsaT024844.1:CDS
ACAAAGTTCATAGACCAAAA+GGG 0.546579 5:-1396034 MsaT024844.1:CDS
GTTGGAGGCATTAACAAGAA+GGG 0.555037 5:-1395787 MsaT024844.1:CDS
CTTATCATCAAGTGAACTCA+AGG 0.556721 5:+1398570 None:intergenic
GCTTCAAGCTCTTGTTGATG+TGG 0.560091 5:-1398422 MsaT024844.1:CDS
TGGTGACAACTTGAAACAGT+TGG 0.561040 5:-1396303 MsaT024844.1:CDS
AGACCAAAAGGGAAACCAGA+TGG 0.568337 5:-1396023 MsaT024844.1:CDS
GACCAAAAGGGAAACCAGAT+GGG 0.568542 5:-1396022 MsaT024844.1:CDS
TCAATTCAGCCGGAAGGAGT+AGG 0.569374 5:-1395544 MsaT024844.1:CDS
GTTGGACACAATGTGCATAG+TGG 0.577145 5:-1396212 MsaT024844.1:CDS
TTGGAGGCATTAACAAGAAG+GGG 0.580609 5:-1395786 MsaT024844.1:CDS
GGATCGCATGTGCAGAACTT+GGG 0.585194 5:-1398543 MsaT024844.1:CDS
TCGTAAATCTCAAACCATGT+TGG 0.585577 5:+1396056 None:intergenic
TGACAACTTGAAACAGTTGG+AGG 0.589439 5:-1396300 MsaT024844.1:CDS
GGTCAGAAAGATGAAAAGAT+CGG 0.592412 5:+1398761 None:intergenic
TATGATAAAGGTGAATGGAT+TGG 0.597674 5:-1396323 MsaT024844.1:CDS
GTTTGTAGGCTAAATTCAAG+TGG 0.608599 5:-1396436 MsaT024844.1:intron
AAAAGAGCTTTAATAGTAGG+GGG 0.614401 5:-1396388 MsaT024844.1:CDS
GATAGCTTTCTTCTCGTTAG+GGG 0.621591 5:+1396948 None:intergenic
AACACTTCAATTCAGCCGGA+AGG 0.621819 5:-1395550 MsaT024844.1:CDS
CATTTGTTTCACAGCACATG+TGG 0.625218 5:+1398483 None:intergenic
AGCTATCGAACGAATGCCGA+TGG 0.625822 5:-1396932 MsaT024844.1:intron
TTTGAGAAACACTCTCAAAG+TGG 0.627086 5:-1395868 MsaT024844.1:CDS
ACCACTACGAACCTTGAACA+GGG 0.647423 5:+1396346 None:intergenic
CACATGTGCTGTGAAACAAA+TGG 0.647600 5:-1398482 MsaT024844.1:CDS
AATTGGATAGGGAACCAACA+TGG 0.651250 5:-1396070 MsaT024844.1:CDS
GGACACAATGTGCATAGTGG+AGG 0.661970 5:-1396209 MsaT024844.1:CDS
GCCCTGTTCAAGGTTCGTAG+TGG 0.662182 5:-1396347 MsaT024844.1:CDS
GTTCACTTGATGATAAGAGG+AGG 0.664638 5:-1398564 MsaT024844.1:CDS
CAAAAGGGAAACCAGATGGG+TGG 0.669221 5:-1396019 MsaT024844.1:CDS
CCTTACACCAGCAAAGACCA+AGG 0.673207 5:-1398682 MsaT024844.1:CDS
GTTCTAGGCTCTAAATACTG+GGG 0.712321 5:-1398517 MsaT024844.1:CDS
GCCAAACCATGAGATCATCG+AGG 0.781144 5:+1398740 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 1395510 1398866 1395510 ID=MsaG024844
Chr5 mRNA 1395510 1398866 1395510 ID=MsaT024844.1;Parent=MsaG024844
Chr5 exon 1395510 1395633 1395510 ID=MsaT024844.1.exon6;Parent=MsaT024844.1
Chr5 CDS 1395510 1395633 1395510 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Chr5 exon 1395748 1395911 1395748 ID=MsaT024844.1.exon5;Parent=MsaT024844.1
Chr5 CDS 1395748 1395911 1395748 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Chr5 exon 1395992 1396099 1395992 ID=MsaT024844.1.exon4;Parent=MsaT024844.1
Chr5 CDS 1395992 1396099 1395992 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Chr5 exon 1396175 1396450 1396175 ID=MsaT024844.1.exon3;Parent=MsaT024844.1
Chr5 CDS 1396175 1396450 1396175 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Chr5 exon 1396933 1396980 1396933 ID=MsaT024844.1.exon2;Parent=MsaT024844.1
Chr5 CDS 1396933 1396980 1396933 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Chr5 exon 1398273 1398866 1398273 ID=MsaT024844.1.exon1;Parent=MsaT024844.1
Chr5 CDS 1398273 1398866 1398273 ID=cds.MsaT024844.1;Parent=MsaT024844.1
Gene Sequence

>MsaT024844.1

ATGGAGCAAAACACAAGTATTATGATAGAGCAACTTTCTATTTCTTCCAAAGAAGAGATCATTGATTTGAACCAAATCACACTCCGATCTTTTCATCTTTCTGACCTCGATGATCTCATGGTTTGGCATACTGATGAAAAAGTGGCCAAGTTCTGGGGTGAACCTTACACCAGCAAAGACCAAGGCATCAACTTCATTAAAAATATGGCAAGCAGGTATCTAAGTTGCAAAGCAATATGCCATAACGATCATGCTATTGGGTGTATTAAGTTGTCCTTGAGTTCACTTGATGATAAGAGGAGGATCGCATGTGCAGAACTTGGGTATGTTCTAGGCTCTAAATACTGGGGTAAAGGGATTGCCACATGTGCTGTGAAACAAATGGTTAAGGTTGCATTCAGTGAATTTCCATACTTGGAAAGGCTTCAAGCTCTTGTTGATGTGGATAATTTAAGGTCGCAAAGAGTAGTTGAGAAAGTTGGTTTTCAAAAAGAGGGAGTTCTTAGGAAGTATGTATTTTTTAAAGGAAAAAGCAGAGATATGATCATGTTCAGTCTTCTTTCTACTGATCTTAAACTAATGAGGATGTTCAAGGTGCATCACTCCCCTAACGAGAAGAAAGCTATCGAACGAATGCCGATGGCTAAATTCAAGTGGCTTGCAAATGATGAAGCTAACATTAAAAAGAGCTTTAATAGTAGGGGGTCTTTGGCATTAAAAAATGCCCTGTTCAAGGTTCGTAGTGGTTATGATAAAGGTGAATGGATTGGTGACAACTTGAAACAGTTGGAGGTTAAATGGGAAGAAGAGAAATGGCAAAAAAATTCTATGACTAATAAACAAAATAGGCAGTCTAAAGTTGGACACAATGTGCATAGTGGAGGATCCATATCTGCTAGAGTGCATAGAAAAAGAATGAGAGTGGAATTGGATAGGGAACCAACATGGTTTGAGATTTACGACAAAGTTCATAGACCAAAAGGGAAACCAGATGGGTGGTTTAATGAAACACAAGCTAAGATAGCTGAAATGTACCAAACTCAAACGTTTGAGAAACACTCTCAAAGTGGTGAGATTAGTAGTCAACAACCTACTGAAGAAATTGACAATGATATTTATATGGAAATTGTTGGAGGCATTAACAAGAAGGGGCGCATATTTGGATTAGGATCTCAAGTTGTTGTCAAAGAAAACGCTAAAGCGAAGATGGAGCGCTTGGAGCAAATGATTGGGAATATTTTGCCTAATATGAACACTTCAATTCAGCCGGAAGGAGTAGGCGATAATGGTAACAACGAGTTAGATGAGCTTTAG
Protein sequence

>MsaT024844.1

MEQNTSIMIEQLSISSKEEIIDLNQITLRSFHLSDLDDLMVWHTDEKVAKFWGEPYTSKDQGINFIKNMASRYLSCKAICHNDHAIGCIKLSLSSLDDKRRIACAELGYVLGSKYWGKGIATCAVKQMVKVAFSEFPYLERLQALVDVDNLRSQRVVEKVGFQKEGVLRKYVFFKGKSRDMIMFSLLSTDLKLMRMFKVHHSPNEKKAIERMPMAKFKWLANDEANIKKSFNSRGSLALKNALFKVRSGYDKGEWIGDNLKQLEVKWEEEKWQKNSMTNKQNRQSKVGHNVHSGGSISARVHRKRMRVELDREPTWFEIYDKVHRPKGKPDGWFNETQAKIAEMYQTQTFEKHSQSGEISSQQPTEEIDNDIYMEIVGGINKKGRIFGLGSQVVVKENAKAKMERLEQMIGNILPNMNTSIQPEGVGDNGNNELDEL*