AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046300.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046300.01.T01 MTR_4g105110 95.638 298 13 0 1 298 299 596 0.0 580
MsG0880046300.01.T01 MTR_4g105110 95.638 298 13 0 1 298 298 595 0.0 580
MsG0880046300.01.T01 MTR_5g033190 49.281 278 136 3 18 294 335 608 4.31e-84 265
MsG0880046300.01.T01 MTR_5g022240 40.784 255 147 4 33 285 423 675 1.50e-52 182
MsG0880046300.01.T01 MTR_4g073830 37.891 256 156 3 32 285 392 646 1.64e-46 166
MsG0880046300.01.T01 MTR_8g075770 39.216 255 151 4 33 285 404 656 1.52e-43 157
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046300.01.T01 AT3G26600 45.255 274 149 1 14 286 250 523 4.87e-76 241
MsG0880046300.01.T01 AT3G26600 45.255 274 149 1 14 286 331 604 2.91e-75 242
MsG0880046300.01.T01 AT4G34940 43.750 256 140 4 32 285 404 657 6.72e-58 197
MsG0880046300.01.T01 AT5G66200 42.857 259 144 4 28 284 385 641 1.16e-55 191
MsG0880046300.01.T01 AT4G36030 39.689 257 151 4 32 285 407 662 2.59e-50 176

Find 72 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTACTATTGCCAACATTTA+AGG 0.072500 8:-71662805 None:intergenic
AACCTTACCAGGAAAGTTTC+TGG 0.230305 8:-71662559 None:intergenic
GGTAAGGTTCCTCATGTTCT+TGG 0.252843 8:+71662573 MsG0880046300.01.T01:CDS
ACTTGTGTTGTTTATGTCTT+TGG 0.259426 8:+71662083 None:intergenic
ATTCCTGCTATTAAGTCAAT+TGG 0.302511 8:+71662528 MsG0880046300.01.T01:CDS
ACCGGTTGCAAAGGCTGTTT+TGG 0.313708 8:+71662458 MsG0880046300.01.T01:CDS
TCAGCTGTGCTAAGGCTCTT+TGG 0.342011 8:+71662247 MsG0880046300.01.T01:CDS
CACAGACATCCTTTGGGATT+GGG 0.350484 8:+71662963 MsG0880046300.01.T01:CDS
TCAATTGCACAGACATCCTT+TGG 0.355599 8:+71662956 MsG0880046300.01.T01:CDS
GCAAACAGTTCCTTCAAATC+AGG 0.357102 8:-71662894 None:intergenic
TATTAAGTCAATTGGGTCAT+TGG 0.365920 8:+71662536 MsG0880046300.01.T01:CDS
AGTCCAATGCTGATCTTAGA+AGG 0.370689 8:+71662415 MsG0880046300.01.T01:CDS
AGCTCAAAATCCTGATTTGA+AGG 0.373113 8:+71662884 MsG0880046300.01.T01:CDS
CAATTGTCTCATGGCTGTTA+TGG 0.383437 8:+71662374 MsG0880046300.01.T01:CDS
CTTAAATGTTGGCAATAGTA+AGG 0.387406 8:+71662806 MsG0880046300.01.T01:CDS
TAACCGTGTCGACCATTCTA+AGG 0.387506 8:+71662686 MsG0880046300.01.T01:CDS
ACTAGCCACATTTAAATCCT+TGG 0.403135 8:-71662619 None:intergenic
CATTTAAATCCTTGGTTCCA+AGG 0.409106 8:-71662611 None:intergenic
GACTAAAGGCTTGATTTGTC+TGG 0.414185 8:+71662314 MsG0880046300.01.T01:CDS
TGCTCGAAGTGGACTTCATT+CGG 0.421188 8:+71662131 MsG0880046300.01.T01:CDS
GCACAGACATCCTTTGGGAT+TGG 0.428290 8:+71662962 MsG0880046300.01.T01:CDS
ACAAGCTAAAAGACACCCTT+TGG 0.433410 8:-71662277 None:intergenic
CAATTGCACAGACATCCTTT+GGG 0.436730 8:+71662957 MsG0880046300.01.T01:CDS
TCATTGGCCAGAAACTTTCC+TGG 0.437151 8:+71662552 MsG0880046300.01.T01:CDS
TGTTATCTTGCCTTAAATGT+TGG 0.445427 8:+71662795 MsG0880046300.01.T01:CDS
GGCCAGAAACTTTCCTGGTA+AGG 0.451426 8:+71662557 MsG0880046300.01.T01:CDS
TCCAAAACAGCCTTTGCAAC+CGG 0.460510 8:-71662459 None:intergenic
TTCCTGCTATTAAGTCAATT+GGG 0.482397 8:+71662529 MsG0880046300.01.T01:CDS
GTCGACACGGTTATAATTGT+CGG 0.488114 8:-71662676 None:intergenic
TGCTTTCAAGCCTACAGCAC+CGG 0.489164 8:+71662440 MsG0880046300.01.T01:CDS
TTCAGCAGACTCATTAGCTT+AGG 0.493098 8:-71662732 None:intergenic
TTAACATCATTCCTCAACTC+GGG 0.500021 8:-71662222 None:intergenic
CTCTTTGGAAACTCTCCAAA+GGG 0.508419 8:+71662262 MsG0880046300.01.T01:CDS
CACCTATCGCTTTATCAGTC+GGG 0.509085 8:+71662930 MsG0880046300.01.T01:CDS
GCCTACAGCACCGGTTGCAA+AGG 0.509784 8:+71662449 MsG0880046300.01.T01:CDS
TGTTATGGAGATTGCGGCTG+TGG 0.513615 8:+71662389 MsG0880046300.01.T01:CDS
AAGGCAATACTTGAGCTTGA+CGG 0.517112 8:+71662705 MsG0880046300.01.T01:CDS
AAGGATGATCAACAAGTGTA+TGG 0.520473 8:+71662759 MsG0880046300.01.T01:CDS
GGTCCTTTAGTTGCACACCT+TGG 0.526904 8:+71662594 MsG0880046300.01.T01:CDS
AGTCCACTTCGAGCAGCGAC+AGG 0.527513 8:-71662123 None:intergenic
GACCCAATTGACTTAATAGC+AGG 0.529690 8:-71662531 None:intergenic
GTTCCAAGGTGTGCAACTAA+AGG 0.531462 8:-71662597 None:intergenic
ACCCCTTCTAAGATCAGCAT+TGG 0.537779 8:-71662418 None:intergenic
GCTCAAGTATTGCCTTAGAA+TGG 0.546659 8:-71662698 None:intergenic
CTGATCAGAGCCCCGAGTTG+AGG 0.550912 8:+71662211 MsG0880046300.01.T01:CDS
AAACCTGTCGCTGCTCGAAG+TGG 0.554926 8:+71662120 MsG0880046300.01.T01:CDS
TTTAACATCATTCCTCAACT+CGG 0.557994 8:-71662223 None:intergenic
AGAACATGAGGAACCTTACC+AGG 0.558852 8:-71662570 None:intergenic
ATTGAGGCTCAATTGTCTCA+TGG 0.559468 8:+71662365 MsG0880046300.01.T01:CDS
AAGAAGATCACGGAGACTAA+AGG 0.561458 8:+71662300 MsG0880046300.01.T01:CDS
GTCCAATGCTGATCTTAGAA+GGG 0.565521 8:+71662416 MsG0880046300.01.T01:CDS
TTTAGCTTGTAAGAAGATCA+CGG 0.570700 8:+71662290 MsG0880046300.01.T01:CDS
GCCTTTGCAACCGGTGCTGT+AGG 0.577536 8:-71662450 None:intergenic
CCACCTATCGCTTTATCAGT+CGG 0.578387 8:+71662929 MsG0880046300.01.T01:CDS
AATGAGTCTGCTGAAGATGA+AGG 0.579466 8:+71662740 MsG0880046300.01.T01:CDS
TGTTAAAGTCAGCTGTGCTA+AGG 0.583698 8:+71662239 MsG0880046300.01.T01:CDS
AGTTGCACACCTTGGAACCA+AGG 0.586874 8:+71662602 MsG0880046300.01.T01:CDS
AAGATTATTGAGTCTGAGAG+TGG 0.594930 8:+71662339 MsG0880046300.01.T01:CDS
GCTCTTTGGAAACTCTCCAA+AGG 0.595031 8:+71662261 MsG0880046300.01.T01:CDS
CATGGCTGTTATGGAGATTG+CGG 0.597522 8:+71662383 MsG0880046300.01.T01:CDS
GGTGGTTCAAAATTTGTCTG+AGG 0.610894 8:+71662152 MsG0880046300.01.T01:CDS
AGTCTGAGAGTGGAGAATTG+AGG 0.628229 8:+71662349 MsG0880046300.01.T01:CDS
TCCAATGCTGATCTTAGAAG+GGG 0.630502 8:+71662417 MsG0880046300.01.T01:CDS
TAACATCATTCCTCAACTCG+GGG 0.632691 8:-71662221 None:intergenic
TGGAACCAAGGATTTAAATG+TGG 0.636997 8:+71662614 MsG0880046300.01.T01:CDS
TCGAAGTGGACTTCATTCGG+TGG 0.643865 8:+71662134 MsG0880046300.01.T01:CDS
ACTAAAGGACCAAGAACATG+AGG 0.661770 8:-71662582 None:intergenic
TCTGATTTAAGCAACTGCAG+AGG 0.663428 8:+71662180 MsG0880046300.01.T01:CDS
ACTTATAGTCCCAATCCCAA+AGG 0.663601 8:-71662972 None:intergenic
CACCCGACTGATAAAGCGAT+AGG 0.685394 8:-71662932 None:intergenic
CCGACTGATAAAGCGATAGG+TGG 0.693694 8:-71662929 None:intergenic
TTGCCTTAGAATGGTCGACA+CGG 0.702639 8:-71662689 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAGATAACAAAGTAATTTT+AGG - Chr8:71662785-71662804 None:intergenic 20.0%
ATTCCTGCTATTAAGTCAAT+TGG + Chr8:71662528-71662547 MsG0880046300.01.T01:CDS 30.0%
CTTAAATGTTGGCAATAGTA+AGG + Chr8:71662806-71662825 MsG0880046300.01.T01:CDS 30.0%
CTTACTATTGCCAACATTTA+AGG - Chr8:71662808-71662827 None:intergenic 30.0%
TATTAAGTCAATTGGGTCAT+TGG + Chr8:71662536-71662555 MsG0880046300.01.T01:CDS 30.0%
TGTTATCTTGCCTTAAATGT+TGG + Chr8:71662795-71662814 MsG0880046300.01.T01:CDS 30.0%
TTCCTGCTATTAAGTCAATT+GGG + Chr8:71662529-71662548 MsG0880046300.01.T01:CDS 30.0%
TTTAACATCATTCCTCAACT+CGG - Chr8:71662226-71662245 None:intergenic 30.0%
!! TTTAGCTTGTAAGAAGATCA+CGG + Chr8:71662290-71662309 MsG0880046300.01.T01:CDS 30.0%
AAGATTATTGAGTCTGAGAG+TGG + Chr8:71662339-71662358 MsG0880046300.01.T01:CDS 35.0%
AAGGATGATCAACAAGTGTA+TGG + Chr8:71662759-71662778 MsG0880046300.01.T01:CDS 35.0%
ACTAGCCACATTTAAATCCT+TGG - Chr8:71662622-71662641 None:intergenic 35.0%
CATTTAAATCCTTGGTTCCA+AGG - Chr8:71662614-71662633 None:intergenic 35.0%
TGGAACCAAGGATTTAAATG+TGG + Chr8:71662614-71662633 MsG0880046300.01.T01:CDS 35.0%
TTAACATCATTCCTCAACTC+GGG - Chr8:71662225-71662244 None:intergenic 35.0%
! AGCTCAAAATCCTGATTTGA+AGG + Chr8:71662884-71662903 MsG0880046300.01.T01:CDS 35.0%
! ATCAGGATTTTGAGCTAGAA+CGG - Chr8:71662880-71662899 None:intergenic 35.0%
!! TGTTTTGGATCAGCTTTTGA+AGG + Chr8:71662473-71662492 MsG0880046300.01.T01:CDS 35.0%
AACCTTACCAGGAAAGTTTC+TGG - Chr8:71662562-71662581 None:intergenic 40.0%
AAGAAGATCACGGAGACTAA+AGG + Chr8:71662300-71662319 MsG0880046300.01.T01:CDS 40.0%
AAGGCAATACTTGAGCTTGA+CGG + Chr8:71662705-71662724 MsG0880046300.01.T01:CDS 40.0%
AATGAGTCTGCTGAAGATGA+AGG + Chr8:71662740-71662759 MsG0880046300.01.T01:CDS 40.0%
ACAAGCTAAAAGACACCCTT+TGG - Chr8:71662280-71662299 None:intergenic 40.0%
ACTAAAGGACCAAGAACATG+AGG - Chr8:71662585-71662604 None:intergenic 40.0%
AGTCCAATGCTGATCTTAGA+AGG + Chr8:71662415-71662434 MsG0880046300.01.T01:CDS 40.0%
ATTGAGGCTCAATTGTCTCA+TGG + Chr8:71662365-71662384 MsG0880046300.01.T01:CDS 40.0%
CAATTGCACAGACATCCTTT+GGG + Chr8:71662957-71662976 MsG0880046300.01.T01:CDS 40.0%
CAATTGTCTCATGGCTGTTA+TGG + Chr8:71662374-71662393 MsG0880046300.01.T01:CDS 40.0%
GCAAACAGTTCCTTCAAATC+AGG - Chr8:71662897-71662916 None:intergenic 40.0%
GGTGGTTCAAAATTTGTCTG+AGG + Chr8:71662152-71662171 MsG0880046300.01.T01:CDS 40.0%
GTCCAATGCTGATCTTAGAA+GGG + Chr8:71662416-71662435 MsG0880046300.01.T01:CDS 40.0%
GTCGACACGGTTATAATTGT+CGG - Chr8:71662679-71662698 None:intergenic 40.0%
TAACATCATTCCTCAACTCG+GGG - Chr8:71662224-71662243 None:intergenic 40.0%
TCAATTGCACAGACATCCTT+TGG + Chr8:71662956-71662975 MsG0880046300.01.T01:CDS 40.0%
TCCAATGCTGATCTTAGAAG+GGG + Chr8:71662417-71662436 MsG0880046300.01.T01:CDS 40.0%
TCTGATTTAAGCAACTGCAG+AGG + Chr8:71662180-71662199 MsG0880046300.01.T01:CDS 40.0%
TGTTAAAGTCAGCTGTGCTA+AGG + Chr8:71662239-71662258 MsG0880046300.01.T01:CDS 40.0%
! CTCTTTGGAAACTCTCCAAA+GGG + Chr8:71662262-71662281 MsG0880046300.01.T01:CDS 40.0%
! GACCCAATTGACTTAATAGC+AGG - Chr8:71662534-71662553 None:intergenic 40.0%
! GCTCAAGTATTGCCTTAGAA+TGG - Chr8:71662701-71662720 None:intergenic 40.0%
! GGCGCACACAAATTTTATCA+AGG - Chr8:71662658-71662677 None:intergenic 40.0%
! TCAGGATTTTGAGCTAGAAC+GGG - Chr8:71662879-71662898 None:intergenic 40.0%
! TTCAGCAGACTCATTAGCTT+AGG - Chr8:71662735-71662754 None:intergenic 40.0%
!! GACTAAAGGCTTGATTTGTC+TGG + Chr8:71662314-71662333 MsG0880046300.01.T01:CDS 40.0%
!! TTTGGATCAGCTTTTGAAGG+TGG + Chr8:71662476-71662495 MsG0880046300.01.T01:CDS 40.0%
AGAACATGAGGAACCTTACC+AGG - Chr8:71662573-71662592 None:intergenic 45.0%
AGTCTGAGAGTGGAGAATTG+AGG + Chr8:71662349-71662368 MsG0880046300.01.T01:CDS 45.0%
CACCTATCGCTTTATCAGTC+GGG + Chr8:71662930-71662949 MsG0880046300.01.T01:CDS 45.0%
CATGGCTGTTATGGAGATTG+CGG + Chr8:71662383-71662402 MsG0880046300.01.T01:CDS 45.0%
CCACCTATCGCTTTATCAGT+CGG + Chr8:71662929-71662948 MsG0880046300.01.T01:CDS 45.0%
GGTAAGGTTCCTCATGTTCT+TGG + Chr8:71662573-71662592 MsG0880046300.01.T01:CDS 45.0%
GTTCCAAGGTGTGCAACTAA+AGG - Chr8:71662600-71662619 None:intergenic 45.0%
TCATTGGCCAGAAACTTTCC+TGG + Chr8:71662552-71662571 MsG0880046300.01.T01:CDS 45.0%
TCCAAAACAGCCTTTGCAAC+CGG - Chr8:71662462-71662481 None:intergenic 45.0%
TTGCCTTAGAATGGTCGACA+CGG - Chr8:71662692-71662711 None:intergenic 45.0%
! GCTCTTTGGAAACTCTCCAA+AGG + Chr8:71662261-71662280 MsG0880046300.01.T01:CDS 45.0%
! TAACCGTGTCGACCATTCTA+AGG + Chr8:71662686-71662705 MsG0880046300.01.T01:CDS 45.0%
! TGCTCGAAGTGGACTTCATT+CGG + Chr8:71662131-71662150 MsG0880046300.01.T01:CDS 45.0%
!! ACCCCTTCTAAGATCAGCAT+TGG - Chr8:71662421-71662440 None:intergenic 45.0%
!! CACAGACATCCTTTGGGATT+GGG + Chr8:71662963-71662982 MsG0880046300.01.T01:CDS 45.0%
AGTTGCACACCTTGGAACCA+AGG + Chr8:71662602-71662621 MsG0880046300.01.T01:CDS 50.0%
CACCCGACTGATAAAGCGAT+AGG - Chr8:71662935-71662954 None:intergenic 50.0%
CCGACTGATAAAGCGATAGG+TGG - Chr8:71662932-71662951 None:intergenic 50.0%
GGCCAGAAACTTTCCTGGTA+AGG + Chr8:71662557-71662576 MsG0880046300.01.T01:CDS 50.0%
GGTCCTTTAGTTGCACACCT+TGG + Chr8:71662594-71662613 MsG0880046300.01.T01:CDS 50.0%
TCAGCTGTGCTAAGGCTCTT+TGG + Chr8:71662247-71662266 MsG0880046300.01.T01:CDS 50.0%
TGCTTTCAAGCCTACAGCAC+CGG + Chr8:71662440-71662459 MsG0880046300.01.T01:CDS 50.0%
TGTTATGGAGATTGCGGCTG+TGG + Chr8:71662389-71662408 MsG0880046300.01.T01:CDS 50.0%
! ACCGGTTGCAAAGGCTGTTT+TGG + Chr8:71662458-71662477 MsG0880046300.01.T01:CDS 50.0%
! TCGAAGTGGACTTCATTCGG+TGG + Chr8:71662134-71662153 MsG0880046300.01.T01:CDS 50.0%
!! GCACAGACATCCTTTGGGAT+TGG + Chr8:71662962-71662981 MsG0880046300.01.T01:CDS 50.0%
AAACCTGTCGCTGCTCGAAG+TGG + Chr8:71662120-71662139 MsG0880046300.01.T01:CDS 55.0%
AGTCCACTTCGAGCAGCGAC+AGG - Chr8:71662126-71662145 None:intergenic 60.0%
CTGATCAGAGCCCCGAGTTG+AGG + Chr8:71662211-71662230 MsG0880046300.01.T01:CDS 60.0%
!! GCCTACAGCACCGGTTGCAA+AGG + Chr8:71662449-71662468 MsG0880046300.01.T01:CDS 60.0%
!! GCCTTTGCAACCGGTGCTGT+AGG - Chr8:71662453-71662472 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 71662096 71662992 71662096 ID=MsG0880046300.01;Name=MsG0880046300.01
Chr8 mRNA 71662096 71662992 71662096 ID=MsG0880046300.01.T01;Parent=MsG0880046300.01;Name=MsG0880046300.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|298
Chr8 exon 71662096 71662992 71662096 ID=MsG0880046300.01.T01:exon:27879;Parent=MsG0880046300.01.T01
Chr8 CDS 71662096 71662992 71662096 ID=MsG0880046300.01.T01:cds;Parent=MsG0880046300.01.T01
Gene Sequence

>MsG0880046300.01.T01

ATGTCTTTGGATACTGTTCTCAACAAACCTGTCGCTGCTCGAAGTGGACTTCATTCGGTGGTTCAAAATTTGTCTGAGGTTGATTCTGATTTAAGCAACTGCAGAGGAAGAGAAGCTGATCAGAGCCCCGAGTTGAGGAATGATGTTAAAGTCAGCTGTGCTAAGGCTCTTTGGAAACTCTCCAAAGGGTGTCTTTTAGCTTGTAAGAAGATCACGGAGACTAAAGGCTTGATTTGTCTGGCTAAGATTATTGAGTCTGAGAGTGGAGAATTGAGGCTCAATTGTCTCATGGCTGTTATGGAGATTGCGGCTGTGGCAGAGTCCAATGCTGATCTTAGAAGGGGTGCTTTCAAGCCTACAGCACCGGTTGCAAAGGCTGTTTTGGATCAGCTTTTGAAGGTGGTTCGAGAAGAGCGCGATTCAAAATTGTTGATTCCTGCTATTAAGTCAATTGGGTCATTGGCCAGAAACTTTCCTGGTAAGGTTCCTCATGTTCTTGGTCCTTTAGTTGCACACCTTGGAACCAAGGATTTAAATGTGGCTAGTGAAGTTATTGTCGCCTTGATAAAATTTGTGTGCGCCGACAATTATAACCGTGTCGACCATTCTAAGGCAATACTTGAGCTTGACGGAATTCCTAAGCTAATGAGTCTGCTGAAGATGAAGGATGATCAACAAGTGTATGGCCTAAAATTACTTTGTTATCTTGCCTTAAATGTTGGCAATAGTAAGGTTCTTGAGCAAGAACGTGTATTGAGTACTATAGAGAAACTTGCTCGTCCCGTTCTAGCTCAAAATCCTGATTTGAAGGAACTGTTTGCGAACGCTATACACCACCTATCGCTTTATCAGTCGGGTGTTCAATTGCACAGACATCCTTTGGGATTGGGACTATAA
Protein sequence

>MsG0880046300.01.T01

MSLDTVLNKPVAARSGLHSVVQNLSEVDSDLSNCRGREADQSPELRNDVKVSCAKALWKLSKGCLLACKKITETKGLICLAKIIESESGELRLNCLMAVMEIAAVAESNADLRRGAFKPTAPVAKAVLDQLLKVVREERDSKLLIPAIKSIGSLARNFPGKVPHVLGPLVAHLGTKDLNVASEVIVALIKFVCADNYNRVDHSKAILELDGIPKLMSLLKMKDDQQVYGLKLLCYLALNVGNSKVLEQERVLSTIEKLARPVLAQNPDLKELFANAIHHLSLYQSGVQLHRHPLGLGL*