AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82595

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82595.t1 MTR_3g048940 97.845 232 5 0 1 232 1 232 3.99e-172 473
MS.gene82595.t1 MTR_5g085090 68.644 236 54 4 1 219 1 233 1.66e-112 322
MS.gene82595.t1 MTR_8g009140 64.840 219 56 2 2 200 1 218 9.67e-101 292
MS.gene82595.t1 MTR_8g007200 61.818 220 47 3 1 200 1 203 1.82e-90 265
MS.gene82595.t1 MTR_8g007210 73.377 154 34 2 1 154 1 147 2.45e-83 245
MS.gene82595.t1 MTR_8g007225 69.065 139 26 2 23 161 12 133 8.34e-68 205
MS.gene82595.t1 MTR_3g061710 47.027 185 38 5 2 180 1 131 8.52e-44 144
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82595.t1 AT2G42780 51.887 212 100 2 9 219 7 217 3.47e-72 220
MS.gene82595.t1 AT2G42780 52.358 212 99 2 9 219 7 217 9.51e-72 221

Find 38 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGAGTAAAAGAAGATTT+TGG 0.203422 3.1:-36012570 MS.gene82595:CDS
TTCCACAATTTATCTGTTAC+CGG 0.280523 3.1:+36013189 None:intergenic
ATTGCACAAATGAAATAATT+AGG 0.289998 3.1:-36013137 MS.gene82595:CDS
AAAGGTCCCAATCTTCAAAA+AGG 0.360829 3.1:-36011971 MS.gene82595:CDS
ATGAAGATTGGAAGCATGTC+TGG 0.374521 3.1:-36012010 MS.gene82595:CDS
CAAAGATAGAATTTCTTAAG+AGG 0.383864 3.1:-36012382 MS.gene82595:intron
TTTACTCGAAGGTGGAAGTT+TGG 0.395080 3.1:+36012582 None:intergenic
TCATCAAGTAACATGAAGAT+TGG 0.444989 3.1:-36012022 MS.gene82595:CDS
CAGATGGTTGCAGTTGTATG+AGG 0.455280 3.1:-36013088 MS.gene82595:intron
CTAAGATACCTTGGAAATGT+TGG 0.456308 3.1:-36013392 MS.gene82595:CDS
TCAAGCAGATGATGATCAAC+AGG 0.457364 3.1:+36013368 None:intergenic
TGCGAGAAAGACGCCATCTC+TGG 0.462376 3.1:-36013447 MS.gene82595:CDS
ATTCTATTCCGAGGAGTAGC+AGG 0.466316 3.1:-36012152 MS.gene82595:intron
CCTTCTCGATATGCGTCAAC+TGG 0.471805 3.1:+36013318 None:intergenic
ATGAAGCAATTGATCGACTC+AGG 0.483244 3.1:-36012857 MS.gene82595:CDS
ATAGATAATCTAAGATACCT+TGG 0.490833 3.1:-36013401 MS.gene82595:CDS
ACATTTGACACGTTGTATCC+AGG 0.501288 3.1:+36012428 None:intergenic
AAGTTCTTTGAAAAGCAGTT+CGG 0.506338 3.1:-36013165 MS.gene82595:CDS
TAAGGGAAAAGAAGTGGCTC+AGG 0.515558 3.1:-36012886 MS.gene82595:CDS
ATTGGAAGCATGTCTGGAGT+TGG 0.535179 3.1:-36012004 MS.gene82595:CDS
TCCACAATTTATCTGTTACC+GGG 0.552326 3.1:+36013190 None:intergenic
GCAGGGGATGGATTTGAGCC+CGG 0.557809 3.1:-36013208 MS.gene82595:intron
CTAAAACTCTTGCAGTCGGG+AGG 0.571324 3.1:-36012202 MS.gene82595:intron
AAATGAAATAATTAGGAGGA+TGG 0.572082 3.1:-36013130 MS.gene82595:CDS
GCCCGGTAACAGATAAATTG+TGG 0.574529 3.1:-36013191 MS.gene82595:CDS
GGAGTTGGTTCAAGTTCCAA+AGG 0.582059 3.1:-36011989 MS.gene82595:CDS
GCACAAATGAAATAATTAGG+AGG 0.601001 3.1:-36013134 MS.gene82595:CDS
TGTACCTACCTGCTACTCCT+CGG 0.603626 3.1:+36012144 None:intergenic
TCAGTGTTGTTATGATGAGA+AGG 0.608099 3.1:-36013481 None:intergenic
CAACAGGACCAACATTTCCA+AGG 0.608495 3.1:+36013384 None:intergenic
TAACTCTATACACAGGCTAA+GGG 0.615938 3.1:-36012903 MS.gene82595:intron
ACACAAAGATCAACCAGAGA+TGG 0.616826 3.1:+36013434 None:intergenic
CCAGTTGACGCATATCGAGA+AGG 0.621684 3.1:-36013318 MS.gene82595:CDS
ACAGGCTAAGGGAAAAGAAG+TGG 0.624145 3.1:-36012892 MS.gene82595:intron
TGAAGCAATTGATCGACTCA+GGG 0.648359 3.1:-36012856 MS.gene82595:CDS
GATATGCAGAGAAACAGAGC+AGG 0.650193 3.1:-36012621 MS.gene82595:intron
CAGTGTTGTTATGATGAGAA+GGG 0.672880 3.1:-36013480 None:intergenic
AACTGGTCAAGTGTGCAGTG+TGG 0.782238 3.1:+36013335 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAATTTGTTTTATTTGATT+TGG - chr3.1:36012189-36012208 MS.gene82595:CDS 10.0%
!! GTACATATAATATCATTATT+TGG - chr3.1:36013293-36013312 MS.gene82595:intron 15.0%
!!! ATATTCACTTAATATTTTGT+TGG - chr3.1:36013185-36013204 MS.gene82595:CDS 15.0%
!! ATTGCACAAATGAAATAATT+AGG - chr3.1:36012282-36012301 MS.gene82595:intron 20.0%
!! CAAAATATTAAGTGAATATG+CGG + chr3.1:36013184-36013203 None:intergenic 20.0%
!!! GATTTATGGTTTAAAATGTT+AGG + chr3.1:36012723-36012742 None:intergenic 20.0%
!!! TTGTTTTTTCCTTTTTGAAT+CGG - chr3.1:36012372-36012391 MS.gene82595:intron 20.0%
! AAATGAAATAATTAGGAGGA+TGG - chr3.1:36012289-36012308 MS.gene82595:intron 25.0%
! AGTATCAATCAGATAATCAT+AGG + chr3.1:36013075-36013094 None:intergenic 25.0%
! ATTGATACTTCCAAGTATTT+CGG - chr3.1:36013086-36013105 MS.gene82595:intron 25.0%
! CAAAATTCTAGTATGTTTCA+CGG + chr3.1:36013123-36013142 None:intergenic 25.0%
! CAAAGATAGAATTTCTTAAG+AGG - chr3.1:36013037-36013056 MS.gene82595:intron 25.0%
! CAAATTTCTTAGAAGGAAAA+CGG + chr3.1:36012645-36012664 None:intergenic 25.0%
!! ATAGATAATCTAAGATACCT+TGG - chr3.1:36012018-36012037 MS.gene82595:CDS 25.0%
!! ATCTTCAAAAAGGATGTTTT+AGG - chr3.1:36013458-36013477 MS.gene82595:CDS 25.0%
!! GAAATATAACCGATTCAAAA+AGG + chr3.1:36012384-36012403 None:intergenic 25.0%
!! TCTTCAAAAAGGATGTTTTA+GGG - chr3.1:36013459-36013478 MS.gene82595:CDS 25.0%
!! TTCGAGTAAAAGAAGATTTT+GGG - chr3.1:36012850-36012869 MS.gene82595:CDS 25.0%
!!! AAAACATCCTTTTTGAAGAT+TGG + chr3.1:36013458-36013477 None:intergenic 25.0%
!!! AAACATCCTTTTTGAAGATT+GGG + chr3.1:36013457-36013476 None:intergenic 25.0%
!!! TGATGATGTTTTGTAGATAA+TGG - chr3.1:36012967-36012986 MS.gene82595:intron 25.0%
!!! TTGTTTTATTTGATTTGGCA+GGG - chr3.1:36012194-36012213 MS.gene82595:intron 25.0%
!!! TTTGTTTTATTTGATTTGGC+AGG - chr3.1:36012193-36012212 MS.gene82595:intron 25.0%
AAAGTGATTTCCGAAATACT+TGG + chr3.1:36013099-36013118 None:intergenic 30.0%
CAGATAATCATAGGAAAGAA+AGG + chr3.1:36013066-36013085 None:intergenic 30.0%
GCACAAATGAAATAATTAGG+AGG - chr3.1:36012285-36012304 MS.gene82595:intron 30.0%
TCATCAAGTAACATGAAGAT+TGG - chr3.1:36013397-36013416 MS.gene82595:CDS 30.0%
TGAAGAAAAATTCTATTCCG+AGG - chr3.1:36013258-36013277 MS.gene82595:intron 30.0%
TTCCACAATTTATCTGTTAC+CGG + chr3.1:36012233-36012252 None:intergenic 30.0%
! AAGTTCTTTGAAAAGCAGTT+CGG - chr3.1:36012254-36012273 MS.gene82595:intron 30.0%
! CAAAATCTTCTTTTACTCGA+AGG + chr3.1:36012851-36012870 None:intergenic 30.0%
! CTTCGAGTAAAAGAAGATTT+TGG - chr3.1:36012849-36012868 MS.gene82595:CDS 30.0%
! TCGAGTAAAAGAAGATTTTG+GGG - chr3.1:36012851-36012870 MS.gene82595:CDS 30.0%
!! AAAAAAGAGTGTCATTCAGA+TGG - chr3.1:36012315-36012334 MS.gene82595:intron 30.0%
!! CTTCAAAAAGGATGTTTTAG+GGG - chr3.1:36013460-36013479 MS.gene82595:CDS 30.0%
!! TGAGTTGCTACATTGATTTA+TGG + chr3.1:36012737-36012756 None:intergenic 30.0%
!!! TGTTTTATTTGATTTGGCAG+GGG - chr3.1:36012195-36012214 MS.gene82595:intron 30.0%
!!! TTTTCTAAAACTCTTGCAGT+CGG - chr3.1:36013213-36013232 MS.gene82595:intron 30.0%
AAAAATCTGTCTTACTTCGC+TGG + chr3.1:36012127-36012146 None:intergenic 35.0%
AAAGGTCCCAATCTTCAAAA+AGG - chr3.1:36013448-36013467 MS.gene82595:CDS 35.0%
ACCATGTAATAGTATAAGCG+TGG - chr3.1:36012458-36012477 MS.gene82595:intron 35.0%
CAACACTTATACTAAGCAGA+CGG + chr3.1:36012779-36012798 None:intergenic 35.0%
CTAAGATACCTTGGAAATGT+TGG - chr3.1:36012027-36012046 MS.gene82595:intron 35.0%
CTGTGTATAGAGTTAGGAAA+AGG + chr3.1:36012511-36012530 None:intergenic 35.0%
TAACTCTATACACAGGCTAA+GGG - chr3.1:36012516-36012535 MS.gene82595:intron 35.0%
TACAACTTCAGTGAAGTAGA+GGG + chr3.1:36012917-36012936 None:intergenic 35.0%
TAGAGTTAGGAAAAGGTTAG+AGG + chr3.1:36012504-36012523 None:intergenic 35.0%
TCCACAATTTATCTGTTACC+GGG + chr3.1:36012232-36012251 None:intergenic 35.0%
TCCACGCTTATACTATTACA+TGG + chr3.1:36012462-36012481 None:intergenic 35.0%
! AATCTTCTTTTACTCGAAGG+TGG + chr3.1:36012848-36012867 None:intergenic 35.0%
! CTTTTCCTAACTCTATACAC+AGG - chr3.1:36012509-36012528 MS.gene82595:intron 35.0%
!! AGTAAAAGAAGATTTTGGGG+AGG - chr3.1:36012854-36012873 MS.gene82595:CDS 35.0%
!! TTTCTAAAACTCTTGCAGTC+GGG - chr3.1:36013214-36013233 MS.gene82595:intron 35.0%
!! TTTTTGAAGATTGGGACCTT+TGG + chr3.1:36013449-36013468 None:intergenic 35.0%
!!! ATGCATTTTTTGCATGACAC+GGG + chr3.1:36012668-36012687 None:intergenic 35.0%
!!! GATGCATTTTTTGCATGACA+CGG + chr3.1:36012669-36012688 None:intergenic 35.0%
!!! TGTTTTGTAGATAATGGACC+TGG - chr3.1:36012973-36012992 MS.gene82595:intron 35.0%
AACGAGAGGAGAAAAACAAG+AGG + chr3.1:36013331-36013350 None:intergenic 40.0%
ACACAAAGATCAACCAGAGA+TGG + chr3.1:36011988-36012007 None:intergenic 40.0%
ACACGGGCAAATTTCTTAGA+AGG + chr3.1:36012652-36012671 None:intergenic 40.0%
ACATTTGACACGTTGTATCC+AGG + chr3.1:36012994-36013013 None:intergenic 40.0%
ACTTGATGAACTGCAGAACA+TGG + chr3.1:36013386-36013405 None:intergenic 40.0%
AGTGAATATGCGGTTGAGTT+TGG + chr3.1:36013174-36013193 None:intergenic 40.0%
CTAACTCTATACACAGGCTA+AGG - chr3.1:36012515-36012534 MS.gene82595:intron 40.0%
CTACAACTTCAGTGAAGTAG+AGG + chr3.1:36012918-36012937 None:intergenic 40.0%
CTTAGCCTGTGTATAGAGTT+AGG + chr3.1:36012517-36012536 None:intergenic 40.0%
TCAAGCAGATGATGATCAAC+AGG + chr3.1:36012054-36012073 None:intergenic 40.0%
TTTACTCGAAGGTGGAAGTT+TGG + chr3.1:36012840-36012859 None:intergenic 40.0%
! ATGAAGATTGGAAGCATGTC+TGG - chr3.1:36013409-36013428 MS.gene82595:CDS 40.0%
! ATGAAGCAATTGATCGACTC+AGG - chr3.1:36012562-36012581 MS.gene82595:intron 40.0%
! TGAAGCAATTGATCGACTCA+GGG - chr3.1:36012563-36012582 MS.gene82595:intron 40.0%
!! TTATTTGATTTGGCAGGGGA+TGG - chr3.1:36012199-36012218 MS.gene82595:intron 40.0%
ACAGGCTAAGGGAAAAGAAG+TGG - chr3.1:36012527-36012546 MS.gene82595:intron 45.0%
ATTCTATTCCGAGGAGTAGC+AGG - chr3.1:36013267-36013286 MS.gene82595:intron 45.0%
CAACAGGACCAACATTTCCA+AGG + chr3.1:36012038-36012057 None:intergenic 45.0%
CAACTTCATGAGAACTGTCG+AGG + chr3.1:36013361-36013380 None:intergenic 45.0%
CAGATGGTTGCAGTTGTATG+AGG - chr3.1:36012331-36012350 MS.gene82595:intron 45.0%
GATATGCAGAGAAACAGAGC+AGG - chr3.1:36012798-36012817 MS.gene82595:intron 45.0%
GCCCGGTAACAGATAAATTG+TGG - chr3.1:36012228-36012247 MS.gene82595:intron 45.0%
GGAAAACGGAAGTAGCAGAA+AGG + chr3.1:36012631-36012650 None:intergenic 45.0%
GTCGAGGAAAACAAAACGAG+AGG + chr3.1:36013345-36013364 None:intergenic 45.0%
TAAGGGAAAAGAAGTGGCTC+AGG - chr3.1:36012533-36012552 MS.gene82595:intron 45.0%
! ATTGGAAGCATGTCTGGAGT+TGG - chr3.1:36013415-36013434 MS.gene82595:CDS 45.0%
! GGAGTTGGTTCAAGTTCCAA+AGG - chr3.1:36013430-36013449 MS.gene82595:CDS 45.0%
AACTGGTCAAGTGTGCAGTG+TGG + chr3.1:36012087-36012106 None:intergenic 50.0%
CCAGTTGACGCATATCGAGA+AGG - chr3.1:36012101-36012120 MS.gene82595:intron 50.0%
CCTTCTCGATATGCGTCAAC+TGG + chr3.1:36012104-36012123 None:intergenic 50.0%
CGGAAGTAGCAGAAAGGTAG+AGG + chr3.1:36012625-36012644 None:intergenic 50.0%
CTAAAACTCTTGCAGTCGGG+AGG - chr3.1:36013217-36013236 MS.gene82595:intron 50.0%
TATTCCGAGGAGTAGCAGGT+AGG - chr3.1:36013271-36013290 MS.gene82595:intron 50.0%
TGTACCTACCTGCTACTCCT+CGG + chr3.1:36013278-36013297 None:intergenic 50.0%
TGCGAGAAAGACGCCATCTC+TGG - chr3.1:36011972-36011991 MS.gene82595:CDS 55.0%
! GCAGGGGATGGATTTGAGCC+CGG - chr3.1:36012211-36012230 MS.gene82595:intron 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 36011949 36013492 36011949 ID=MS.gene82595
chr3.1 mRNA 36011949 36013492 36011949 ID=MS.gene82595.t1;Parent=MS.gene82595
chr3.1 exon 36013310 36013492 36013310 ID=MS.gene82595.t1.exon1;Parent=MS.gene82595.t1
chr3.1 CDS 36013310 36013492 36013310 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36013089 36013226 36013089 ID=MS.gene82595.t1.exon2;Parent=MS.gene82595.t1
chr3.1 CDS 36013089 36013226 36013089 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36012832 36012910 36012832 ID=MS.gene82595.t1.exon3;Parent=MS.gene82595.t1
chr3.1 CDS 36012832 36012910 36012832 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36012566 36012634 36012566 ID=MS.gene82595.t1.exon4;Parent=MS.gene82595.t1
chr3.1 CDS 36012566 36012634 36012566 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36012383 36012458 36012383 ID=MS.gene82595.t1.exon5;Parent=MS.gene82595.t1
chr3.1 CDS 36012383 36012458 36012383 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36012153 36012209 36012153 ID=MS.gene82595.t1.exon6;Parent=MS.gene82595.t1
chr3.1 CDS 36012153 36012209 36012153 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
chr3.1 exon 36011949 36012045 36011949 ID=MS.gene82595.t1.exon7;Parent=MS.gene82595.t1
chr3.1 CDS 36011949 36012045 36011949 ID=cds.MS.gene82595.t1;Parent=MS.gene82595.t1
Gene Sequence

>MS.gene82595

ATGATGAGAAGGGATCAAATATCTGCGAGAAAGACGCCATCTCTGGTTGATCTTTGTGTTCAAACAGCTATAGATAATCTAAGATACCTTGGAAATGTTGGTCCTGTTGATCATCATCTGCTTGAACGAATCTTGCCACACTGCACACTTGACCAGTTGACGCATATCGAGAAGGCCAGCGAAGTAAGACAGATTTTTGTTAACTACTATGAATGAAGTTAAAACAAGACAAATGAATCTATAATTTGTTTTATTTGATTTGGCAGGGGATGGATTTGAGCCCGGTAACAGATAAATTGTGGAAAAAGTTCTTTGAAAAGCAGTTCGGTATAAATTGCACAAATGAAATAATTAGGAGGATGGCAGAAAAAAGAGTGTCATTCAGATGGTTGCAGTTGTATGAGGTATTTTTTTTTACTTGTTTTGTTTTTTCCTTTTTGAATCGGTTATATTTCAGAACTAATAGAAGTATTAAATGTAATTGTTCTTTCTTTTGCACTAGATACTGTACCATGTAATAGTATAAGCGTGGATTGATTTTGCGCTGTTTTTCCTCTAACCTTTTCCTAACTCTATACACAGGCTAAGGGAAAAGAAGTGGCTCAGGCTGAGAATGAAGCAATTGATCGACTCAGGGAACGCTACAAGAATGTAGATGCAAGTAATGACTTTTCCTCTACCTTTCTGCTACTTCCGTTTTCCTTCTAAGAAATTTGCCCGTGTCATGCAAAAAATGCATCTTAACGATAATTTCTTGTTTGATTTGAGATGCCTAACATTTTAAACCATAAATCAATGTAGCAACTCATGCGTAGTTATATTTTCTGCCGTCTGCTTAGTATAAGTGTTGATATGCAGAGAAACAGAGCAGGCAAGTAAAAACATGCACCAAACTTCCACCTTCGAGTAAAAGAAGATTTTGGGGAGGTAATTTTTTGTTTTATTTTATTTCTGTATGTTTGTTTCCCTCTACTTCACTGAAGTTGTAGCTTTCACATTTTAGTTGTTTTTTCATCTTTGATGATGTTTTGTAGATAATGGACCTGGATACAACGTGTCAAATGTGAAGAGCAACATAATGAAGAAGTCAAAGATAGAATTTCTTAAGAGGTAACCTTTCTTTCCTATGATTATCTGATTGATACTTCCAAGTATTTCGGAAATCACTTTACCGTGAAACATACTAGAATTTTGTCTGTTCATGCATCTTGAAGTTATATAGCCAAACTCAACCGCATATTCACTTAATATTTTGTTGGTTTGTTTTTCTAAAACTCTTGCAGTCGGGAGGTAAAAAATATCGCAGCAATGAAGAAAAATTCTATTCCGAGGAGTAGCAGGTAGGTACATATAATATCATTATTTGGTACAAACGTCGTCCTCTTGTTTTTCTCCTCTCGTTTTGTTTTCCTCGACAGTTCTCATGAAGTTGCTCCATGTTCTGCAGTTCATCAAGTAACATGAAGATTGGAAGCATGTCTGGAGTTGGTTCAAGTTCCAAAGGTCCCAATCTTCAAAAAGGATGTTTTAGGGGCAGACAATGA
Protein sequence

>MS.gene82595.t1

MMRRDQISARKTPSLVDLCVQTAIDNLRYLGNVGPVDHHLLERILPHCTLDQLTHIEKASEGMDLSPVTDKLWKKFFEKQFGINCTNEIIRRMAEKRVSFRWLQLYEAKGKEVAQAENEAIDRLRERYKNVDAKKQSRQVKTCTKLPPSSKRRFWGDNGPGYNVSNVKSNIMKKSKIEFLKSREVKNIAAMKKNSIPRSSSSSSNMKIGSMSGVGSSSKGPNLQKGCFRGRQ