AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055468


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055468.t1 MTR_5g007350 99.177 243 2 0 1 243 645 887 1.61e-164 477
MS.gene055468.t1 MTR_4g478190 62.500 264 73 8 1 239 594 856 6.74e-73 238
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055468.t1 AT5G16730 49.807 259 105 6 1 239 598 851 2.04e-44 159
MS.gene055468.t1 AT3G02930 45.228 241 107 3 1 239 585 802 7.25e-35 132
MS.gene055468.t1 AT3G02930 45.228 241 107 3 1 239 587 804 8.72e-35 132
MS.gene055468.t1 AT3G02930 45.228 241 107 3 1 239 587 804 8.72e-35 132
MS.gene055468.t1 AT1G65010 37.358 265 112 11 8 232 1084 1334 2.65e-23 99.0

Find 52 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTCACATTCTCAGGTTT+TGG 0.207509 5.1:+1845337 None:intergenic
AGGAGAAGGTAGCATATTTA+AGG 0.244355 5.1:-1845428 MS.gene055468:CDS
GAAGTTGAAGGAGAGTTTAT+TGG 0.258244 5.1:-1845665 MS.gene055468:CDS
AAGCCTTTGCTTGGCAAGTT+TGG 0.262872 5.1:-1845070 MS.gene055468:CDS
TCTGAGAACTCTACTACTTT+AGG 0.280952 5.1:+1845466 None:intergenic
TTGATCACTTGTTCCTTTGT+TGG 0.293101 5.1:+1845103 None:intergenic
TAAGGAAGAGCTTTCGGTTT+CGG 0.323233 5.1:-1845410 MS.gene055468:CDS
TCCTCTTCAAAGGATTCTTC+TGG 0.326731 5.1:+1845202 None:intergenic
CATATTTAAGGAAGAGCTTT+CGG 0.351877 5.1:-1845416 MS.gene055468:CDS
AAAACGAGGACCTCCGATCT+AGG 0.357947 5.1:-1845609 MS.gene055468:CDS
CGAAACACGAATGAGGAAAA+TGG 0.362443 5.1:-1845526 MS.gene055468:CDS
GCAAAGTATTGTTCTATTTG+TGG 0.364116 5.1:+1845011 None:intergenic
TCTGGTTCCGCTCCTTTCTC+TGG 0.369901 5.1:+1845220 None:intergenic
TAACTCCTCCACCTTCTTGA+TGG 0.411635 5.1:+1845576 None:intergenic
GAGAATGGGCATGGAGGAGA+AGG 0.415557 5.1:-1845442 MS.gene055468:CDS
CTTCTTTAAGTGCTTCCTGC+AGG 0.437922 5.1:+1845704 None:intergenic
TGATTCCACTTCCTCTTCAA+AGG 0.461956 5.1:+1845192 None:intergenic
AGCTGAGAGCATGAAGTTGA+AGG 0.471831 5.1:-1845677 MS.gene055468:CDS
AGAATCCTTTGAAGAGGAAG+TGG 0.477114 5.1:-1845197 MS.gene055468:CDS
CTTTAAGTGCTTCCTGCAGG+TGG 0.485278 5.1:+1845707 None:intergenic
CCAAAACCTGAGAATGTGAA+TGG 0.485446 5.1:-1845337 MS.gene055468:CDS
TAGAGTTCTCAGAAGAGAAT+GGG 0.491423 5.1:-1845456 MS.gene055468:CDS
AAGAAGAAGAAGCCTTTGCT+TGG 0.502628 5.1:-1845079 MS.gene055468:CDS
ACAGATGGTGGTGAGACAAA+TGG 0.508326 5.1:-1845166 MS.gene055468:CDS
CTTCCAAACTTGCCAAGCAA+AGG 0.509231 5.1:+1845067 None:intergenic
GTAGAGTTCTCAGAAGAGAA+TGG 0.519533 5.1:-1845457 MS.gene055468:CDS
CAAAGAAGAAAACATTGTCT+TGG 0.534634 5.1:-1845386 MS.gene055468:CDS
AGCCGAGGTGATCCACCTGC+AGG 0.551762 5.1:-1845719 MS.gene055468:CDS
AAACGAGGACCTCCGATCTA+GGG 0.552396 5.1:-1845608 MS.gene055468:CDS
TTCTGTTGAATTGAAAATGT+GGG 0.553383 5.1:-1845275 MS.gene055468:CDS
TTCTCAGAAGAGAATGGGCA+TGG 0.553671 5.1:-1845451 MS.gene055468:CDS
ATTCTGTTGAATTGAAAATG+TGG 0.555044 5.1:-1845276 MS.gene055468:CDS
GAAGGAAGAAGATGCGAGGA+AGG 0.556127 5.1:-1845308 MS.gene055468:CDS
ACCAGAAGAATCCTTTGAAG+AGG 0.592110 5.1:-1845203 MS.gene055468:CDS
TACAACACGAAACACGAATG+AGG 0.595109 5.1:-1845533 MS.gene055468:CDS
AGCTACCATCAAGAAGGTGG+AGG 0.602776 5.1:-1845581 MS.gene055468:CDS
ACAGAGAACATTGGTGATGG+TGG 0.612489 5.1:-1845133 MS.gene055468:CDS
ATCAGCTACCATCAAGAAGG+TGG 0.613126 5.1:-1845584 MS.gene055468:CDS
TATGAAGGAAGTTGAAGCCG+AGG 0.616102 5.1:-1845734 MS.gene055468:CDS
TGGTAGCTGATTCCCTAGAT+CGG 0.616393 5.1:+1845596 None:intergenic
TGGTGGAAGCTCACCAACAA+AGG 0.619554 5.1:-1845116 MS.gene055468:CDS
GGAATCAGCTACCATCAAGA+AGG 0.621797 5.1:-1845587 MS.gene055468:CDS
GAAGTGGAATCAAAGACAGA+TGG 0.624193 5.1:-1845181 MS.gene055468:CDS
GTGGAATCAAAGACAGATGG+TGG 0.634087 5.1:-1845178 MS.gene055468:CDS
TGATCTTTCTGATAGCGAGA+AGG 0.643086 5.1:-1845503 MS.gene055468:CDS
GAATGTGAATGGAAAACTGA+AGG 0.653191 5.1:-1845326 MS.gene055468:CDS
AACTGAAGGAAGAAGATGCG+AGG 0.658723 5.1:-1845312 MS.gene055468:CDS
TTCCTGCAGGTGGATCACCT+CGG 0.677019 5.1:+1845717 None:intergenic
GTGACAGAGAACATTGGTGA+TGG 0.683202 5.1:-1845136 MS.gene055468:CDS
TCAGAAGAGAATGGGCATGG+AGG 0.685717 5.1:-1845448 MS.gene055468:CDS
TAGCTGATTCCCTAGATCGG+AGG 0.695428 5.1:+1845599 None:intergenic
GCATCTGTGACAGAGAACAT+TGG 0.718063 5.1:-1845142 MS.gene055468:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTCTGTTGAATTGAAAATG+TGG - chr5.1:1845481-1845500 MS.gene055468:CDS 25.0%
! TTCTGTTGAATTGAAAATGT+GGG - chr5.1:1845482-1845501 MS.gene055468:CDS 25.0%
!!! GAATATTTTTCAAGAAAACG+AGG - chr5.1:1845134-1845153 MS.gene055468:CDS 25.0%
CAAAGAAGAAAACATTGTCT+TGG - chr5.1:1845371-1845390 MS.gene055468:CDS 30.0%
CATATTTAAGGAAGAGCTTT+CGG - chr5.1:1845341-1845360 MS.gene055468:CDS 30.0%
! CAAGACAATGTTTTCTTCTT+TGG + chr5.1:1845373-1845392 None:intergenic 30.0%
AGGAGAAGGTAGCATATTTA+AGG - chr5.1:1845329-1845348 MS.gene055468:CDS 35.0%
GAAGTTGAAGGAGAGTTTAT+TGG - chr5.1:1845092-1845111 MS.gene055468:CDS 35.0%
GAATGTGAATGGAAAACTGA+AGG - chr5.1:1845431-1845450 MS.gene055468:CDS 35.0%
TAGAGTTCTCAGAAGAGAAT+GGG - chr5.1:1845301-1845320 MS.gene055468:CDS 35.0%
TCTGAGAACTCTACTACTTT+AGG + chr5.1:1845294-1845313 None:intergenic 35.0%
TTGATCACTTGTTCCTTTGT+TGG + chr5.1:1845657-1845676 None:intergenic 35.0%
! AGTTTTCCATTCACATTCTC+AGG + chr5.1:1845429-1845448 None:intergenic 35.0%
! TACCACTCTTTTTCTTCAAC+AGG + chr5.1:1845716-1845735 None:intergenic 35.0%
AAGAAGAAGAAGCCTTTGCT+TGG - chr5.1:1845678-1845697 MS.gene055468:CDS 40.0%
AGCCTGTTGAAGAAAAAGAG+TGG - chr5.1:1845711-1845730 MS.gene055468:CDS 40.0%
CCAAAACCTGAGAATGTGAA+TGG - chr5.1:1845420-1845439 MS.gene055468:CDS 40.0%
CGAAACACGAATGAGGAAAA+TGG - chr5.1:1845231-1845250 MS.gene055468:CDS 40.0%
GAAGTGGAATCAAAGACAGA+TGG - chr5.1:1845576-1845595 MS.gene055468:CDS 40.0%
GTAGAGTTCTCAGAAGAGAA+TGG - chr5.1:1845300-1845319 MS.gene055468:CDS 40.0%
TAAGGAAGAGCTTTCGGTTT+CGG - chr5.1:1845347-1845366 MS.gene055468:CDS 40.0%
TACAACACGAAACACGAATG+AGG - chr5.1:1845224-1845243 MS.gene055468:CDS 40.0%
TCCTCTTCAAAGGATTCTTC+TGG + chr5.1:1845558-1845577 None:intergenic 40.0%
TGATTCCACTTCCTCTTCAA+AGG + chr5.1:1845568-1845587 None:intergenic 40.0%
! AAAGAGTTTTCGCCAGAGAA+AGG - chr5.1:1845525-1845544 MS.gene055468:CDS 40.0%
! ACCAGAAGAATCCTTTGAAG+AGG - chr5.1:1845554-1845573 MS.gene055468:CDS 40.0%
! AGAATCCTTTGAAGAGGAAG+TGG - chr5.1:1845560-1845579 MS.gene055468:CDS 40.0%
! CCATTCACATTCTCAGGTTT+TGG + chr5.1:1845423-1845442 None:intergenic 40.0%
! TGATCTTTCTGATAGCGAGA+AGG - chr5.1:1845254-1845273 MS.gene055468:CDS 40.0%
AACTGAAGGAAGAAGATGCG+AGG - chr5.1:1845445-1845464 MS.gene055468:CDS 45.0%
AAGCCTTTGCTTGGCAAGTT+TGG - chr5.1:1845687-1845706 MS.gene055468:CDS 45.0%
ATCAGCTACCATCAAGAAGG+TGG - chr5.1:1845173-1845192 MS.gene055468:CDS 45.0%
CTTCCAAACTTGCCAAGCAA+AGG + chr5.1:1845693-1845712 None:intergenic 45.0%
CTTCTTTAAGTGCTTCCTGC+AGG + chr5.1:1845056-1845075 None:intergenic 45.0%
GCATCTGTGACAGAGAACAT+TGG - chr5.1:1845615-1845634 MS.gene055468:CDS 45.0%
GGAATCAGCTACCATCAAGA+AGG - chr5.1:1845170-1845189 MS.gene055468:CDS 45.0%
GTGACAGAGAACATTGGTGA+TGG - chr5.1:1845621-1845640 MS.gene055468:CDS 45.0%
GTGGAATCAAAGACAGATGG+TGG - chr5.1:1845579-1845598 MS.gene055468:CDS 45.0%
TAACTCCTCCACCTTCTTGA+TGG + chr5.1:1845184-1845203 None:intergenic 45.0%
TTCTCAGAAGAGAATGGGCA+TGG - chr5.1:1845306-1845325 MS.gene055468:CDS 45.0%
! ACAGATGGTGGTGAGACAAA+TGG - chr5.1:1845591-1845610 MS.gene055468:CDS 45.0%
! AGCTGAGAGCATGAAGTTGA+AGG - chr5.1:1845080-1845099 MS.gene055468:CDS 45.0%
! TGGTAGCTGATTCCCTAGAT+CGG + chr5.1:1845164-1845183 None:intergenic 45.0%
!! ACAGAGAACATTGGTGATGG+TGG - chr5.1:1845624-1845643 MS.gene055468:CDS 45.0%
AAAACGAGGACCTCCGATCT+AGG - chr5.1:1845148-1845167 MS.gene055468:CDS 50.0%
AAACGAGGACCTCCGATCTA+GGG - chr5.1:1845149-1845168 MS.gene055468:CDS 50.0%
AGCTACCATCAAGAAGGTGG+AGG - chr5.1:1845176-1845195 MS.gene055468:CDS 50.0%
CTTTAAGTGCTTCCTGCAGG+TGG + chr5.1:1845053-1845072 None:intergenic 50.0%
GAAGGAAGAAGATGCGAGGA+AGG - chr5.1:1845449-1845468 MS.gene055468:CDS 50.0%
TCAGAAGAGAATGGGCATGG+AGG - chr5.1:1845309-1845328 MS.gene055468:CDS 50.0%
TGGTGGAAGCTCACCAACAA+AGG - chr5.1:1845641-1845660 MS.gene055468:CDS 50.0%
! GTTTTCGCCAGAGAAAGGAG+CGG - chr5.1:1845530-1845549 MS.gene055468:CDS 50.0%
! TAGCTGATTCCCTAGATCGG+AGG + chr5.1:1845161-1845180 None:intergenic 50.0%
GAGAATGGGCATGGAGGAGA+AGG - chr5.1:1845315-1845334 MS.gene055468:CDS 55.0%
TTCCTGCAGGTGGATCACCT+CGG + chr5.1:1845043-1845062 None:intergenic 55.0%
! TCTGGTTCCGCTCCTTTCTC+TGG + chr5.1:1845540-1845559 None:intergenic 55.0%
AGCCGAGGTGATCCACCTGC+AGG - chr5.1:1845038-1845057 MS.gene055468:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 1845024 1845755 1845024 ID=MS.gene055468
chr5.1 mRNA 1845024 1845755 1845024 ID=MS.gene055468.t1;Parent=MS.gene055468
chr5.1 exon 1845024 1845755 1845024 ID=MS.gene055468.t1.exon1;Parent=MS.gene055468.t1
chr5.1 CDS 1845024 1845755 1845024 ID=cds.MS.gene055468.t1;Parent=MS.gene055468.t1
Gene Sequence

>MS.gene055468

ATGAAGGAAGTTGAAGCCGAGGTGATCCACCTGCAGGAAGCACTTAAAGAAGCACAAGCTGAGAGCATGAAGTTGAAGGAGAGTTTATTGGATAAAGAAAACGAGTTTCAGAATATTTTTCAAGAAAACGAGGACCTCCGATCTAGGGAATCAGCTACCATCAAGAAGGTGGAGGAGTTATCTAAGTCGCTCGAAGAAGCTACAACACGAAACACGAATGAGGAAAATGGTGATCTTTCTGATAGCGAGAAGGACTACGATTTGCTTCCTAAAGTAGTAGAGTTCTCAGAAGAGAATGGGCATGGAGGAGAAGGTAGCATATTTAAGGAAGAGCTTTCGGTTTCGGCCAAAGAAGAAAACATTGTCTTGGATGACAAGTTTGAAAAAACAGAATCTCCAAAACCTGAGAATGTGAATGGAAAACTGAAGGAAGAAGATGCGAGGAAGGAGAAAGATGATTCTGTTGAATTGAAAATGTGGGAGAGCTGCAAGATAGAGAAAAAAGAGTTTTCGCCAGAGAAAGGAGCGGAACCAGAAGAATCCTTTGAAGAGGAAGTGGAATCAAAGACAGATGGTGGTGAGACAAATGGAGCATCTGTGACAGAGAACATTGGTGATGGTGGAAGCTCACCAACAAAGGAACAAGTGATCAAGAAGAAGAAGAAGCCTTTGCTTGGCAAGTTTGGAAGCCTGTTGAAGAAAAAGAGTGGTAGCAATAGCAACCACAAATAG

Protein sequence

>MS.gene055468.t1

MKEVEAEVIHLQEALKEAQAESMKLKESLLDKENEFQNIFQENEDLRSRESATIKKVEELSKSLEEATTRNTNEENGDLSDSEKDYDLLPKVVEFSEENGHGGEGSIFKEELSVSAKEENIVLDDKFEKTESPKPENVNGKLKEEDARKEKDDSVELKMWESCKIEKKEFSPEKGAEPEESFEEEVESKTDGGETNGASVTENIGDGGSSPTKEQVIKKKKKPLLGKFGSLLKKKSGSNSNHK