AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene010934

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010934.t1 MTR_7g050670 90.123 162 16 0 1 162 28 189 2.76e-103 308
MS.gene010934.t1 MTR_7g050670 79.592 98 8 1 164 249 256 353 1.55e-45 159
MS.gene010934.t1 MTR_7g076570 48.598 321 93 8 1 249 54 374 1.06e-84 261
MS.gene010934.t1 MTR_4g088845 46.319 326 95 6 1 249 28 350 1.11e-84 260
MS.gene010934.t1 MTR_7g076760 45.092 326 102 4 1 249 30 355 8.86e-84 258
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010934.t1 AT1G61330 27.976 168 118 3 1 166 19 185 3.19e-15 75.1
MS.gene010934.t1 AT1G61320 27.857 140 98 3 7 144 37 175 5.22e-11 62.8

Find 27 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGATATAGCCAACAAAATT+TGG 0.166151 7.1:+52151166 MS.gene010934:CDS
CGAGAAGCACAATATTGTTT+TGG 0.280542 7.1:+52152118 MS.gene010934:CDS
CACTTGGAACATCTGGTAAC+TGG 0.354434 7.1:-52151424 None:intergenic
TGCAAACCACTTGGAACATC+TGG 0.369208 7.1:-52151431 None:intergenic
ATCAAAACTTCAATCTCAAC+AGG 0.407228 7.1:-52151260 None:intergenic
ATGAACAATTTCACCAAAGA+TGG 0.432770 7.1:-52152223 None:intergenic
AGCTTCAATTGTTGATGGAT+GGG 0.435576 7.1:+52152152 MS.gene010934:CDS
GTTGCAATTGCATGTTTGAT+TGG 0.439724 7.1:-52151065 None:intergenic
TCAGTGATGTGGATGTTAGC+TGG 0.444538 7.1:-52151473 None:intergenic
AGAAATGTCTAGTATGTTGA+TGG 0.446305 7.1:+52151496 MS.gene010934:CDS
AGAAACATAGTTATATCGTA+TGG 0.451009 7.1:-52152190 None:intergenic
CATTTATTCAATTCTCATGA+AGG 0.452735 7.1:+52151203 MS.gene010934:CDS
CTGCAACAACCGTGTCTCCT+AGG 0.455983 7.1:+52151087 MS.gene010934:CDS
AGTCTCTATCAAACAAGAAT+CGG 0.472631 7.1:-52151136 None:intergenic
GAGGGAGCTTCAATTGTTGA+TGG 0.475203 7.1:+52152147 MS.gene010934:CDS
GAGCTTCAATTGTTGATGGA+TGG 0.475394 7.1:+52152151 MS.gene010934:CDS
GTTGCAAATATGCACTAAGA+AGG 0.527767 7.1:+52151292 MS.gene010934:CDS
GCTTCAATTGTTGATGGATG+GGG 0.535016 7.1:+52152153 MS.gene010934:CDS
TGGCTGTAAGGATTCGTGAT+GGG 0.538732 7.1:+52152089 MS.gene010934:CDS
CTCCTAGGTACAAAAGATCA+TGG 0.540463 7.1:+52151102 MS.gene010934:CDS
TAGACATTTCTTCAGTGATG+TGG 0.554004 7.1:-52151484 None:intergenic
GGCTGTAAGGATTCGTGATG+GGG 0.558929 7.1:+52152090 MS.gene010934:CDS
GTGGCTGTAAGGATTCGTGA+TGG 0.602284 7.1:+52152088 MS.gene010934:CDS
ATGCACTAAGAAGGATCTAG+AGG 0.604734 7.1:+52151301 MS.gene010934:CDS
ATTCAATTGTGAAACCAGGT+TGG 0.613456 7.1:-52151343 None:intergenic
CAGTTACCAGATGTTCCAAG+TGG 0.629758 7.1:+52151425 MS.gene010934:CDS
GTAGATTCAATTGTGAAACC+AGG 0.639369 7.1:-52151347 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGTATTATTTTTTAAAGAT+TGG + chr7.1:52152327-52152346 MS.gene010934:intron 10.0%
!! AAGTCAATATTTATAACTAA+TGG + chr7.1:52152484-52152503 MS.gene010934:intron 15.0%
!! ATAATAAATGCATATAGATT+TGG - chr7.1:52152002-52152021 None:intergenic 15.0%
!! TAATCTATGCATATTAATAA+AGG - chr7.1:52152046-52152065 None:intergenic 15.0%
!!! AAATCTTTGAAATGTTTATT+TGG - chr7.1:52151596-52151615 None:intergenic 15.0%
!!! AAATTTTCCATGATAAAAAA+TGG - chr7.1:52151678-52151697 None:intergenic 15.0%
!!! TATTAAACCTTGTAATTTTA+GGG + chr7.1:52152064-52152083 MS.gene010934:intron 15.0%
!!! TTATTAAACCTTGTAATTTT+AGG + chr7.1:52152063-52152082 MS.gene010934:intron 15.0%
!! CAAGTTAAAAACACTAAAAT+TGG + chr7.1:52151388-52151407 MS.gene010934:CDS 20.0%
!! GATAATTGAGTAATTCTAAA+TGG + chr7.1:52152407-52152426 MS.gene010934:intron 20.0%
!!! AATATTGTTTTGGAAATTTG+AGG + chr7.1:52152128-52152147 MS.gene010934:CDS 20.0%
!!! ATATTGTTTTGGAAATTTGA+GGG + chr7.1:52152129-52152148 MS.gene010934:CDS 20.0%
!!! TTTTTTTGAAAGACTTATTG+AGG + chr7.1:52151860-52151879 MS.gene010934:intron 20.0%
! AAAGAATAAATGTCATGGAT+TGG - chr7.1:52152367-52152386 None:intergenic 25.0%
! AGAAACATAGTTATATCGTA+TGG - chr7.1:52152193-52152212 None:intergenic 25.0%
! AGAATTACTCAATTATCCTT+TGG - chr7.1:52152404-52152423 None:intergenic 25.0%
! ATATATACCTCAATAAGTTG+AGG - chr7.1:52151839-52151858 None:intergenic 25.0%
! CATTTATTCAATTCTCATGA+AGG + chr7.1:52151203-52151222 MS.gene010934:CDS 25.0%
! TAAAAAATGGAAAGAAGAGT+TGG - chr7.1:52151665-52151684 None:intergenic 25.0%
!! ATCCATGACATTTATTCTTT+TGG + chr7.1:52152367-52152386 MS.gene010934:intron 25.0%
!!! CTTCTTTCCATTTTTTATCA+TGG + chr7.1:52151668-52151687 MS.gene010934:intron 25.0%
!!! TTGAAGTTTTGATTAAGAGA+TGG + chr7.1:52151270-52151289 MS.gene010934:CDS 25.0%
AGAAATGTCTAGTATGTTGA+TGG + chr7.1:52151496-52151515 MS.gene010934:CDS 30.0%
AGTCTCTATCAAACAAGAAT+CGG - chr7.1:52151139-52151158 None:intergenic 30.0%
ATCAAAACTTCAATCTCAAC+AGG - chr7.1:52151263-52151282 None:intergenic 30.0%
ATGAACAATTTCACCAAAGA+TGG - chr7.1:52152226-52152245 None:intergenic 30.0%
ATTACTCAATTATCCTTTGG+TGG - chr7.1:52152401-52152420 None:intergenic 30.0%
CAATTGTTCGAATTTCTCAA+GGG + chr7.1:52151699-52151718 MS.gene010934:intron 30.0%
CACCAAAAGAATAAATGTCA+TGG - chr7.1:52152372-52152391 None:intergenic 30.0%
TCTCAAAAATTGTCCATCTT+TGG + chr7.1:52152210-52152229 MS.gene010934:CDS 30.0%
! CATGACATTTATTCTTTTGG+TGG + chr7.1:52152370-52152389 MS.gene010934:intron 30.0%
! GATTGCATGTATTCTTTTGA+TGG - chr7.1:52151758-52151777 None:intergenic 30.0%
!! CCAAATTTTGTTGGCTATAT+CGG - chr7.1:52151169-52151188 None:intergenic 30.0%
ATTCAATTGTGAAACCAGGT+TGG - chr7.1:52151346-52151365 None:intergenic 35.0%
CCAATTGTTCGAATTTCTCA+AGG + chr7.1:52151698-52151717 MS.gene010934:intron 35.0%
CCGATATAGCCAACAAAATT+TGG + chr7.1:52151166-52151185 MS.gene010934:CDS 35.0%
CCTTGAGAAATTCGAACAAT+TGG - chr7.1:52151701-52151720 None:intergenic 35.0%
GTAGATTCAATTGTGAAACC+AGG - chr7.1:52151350-52151369 None:intergenic 35.0%
GTTGCAAATATGCACTAAGA+AGG + chr7.1:52151292-52151311 MS.gene010934:CDS 35.0%
GTTGCAATTGCATGTTTGAT+TGG - chr7.1:52151068-52151087 None:intergenic 35.0%
TAGACATTTCTTCAGTGATG+TGG - chr7.1:52151487-52151506 None:intergenic 35.0%
TGCAAAAATTGCAAACCACT+TGG - chr7.1:52151443-52151462 None:intergenic 35.0%
TTTGAGAATCGATTGTTGTG+AGG + chr7.1:52151613-52151632 MS.gene010934:intron 35.0%
! AGCTTCAATTGTTGATGGAT+GGG + chr7.1:52152152-52152171 MS.gene010934:CDS 35.0%
! CTATTGCAGCCAAATTTTGT+TGG - chr7.1:52151178-52151197 None:intergenic 35.0%
!! AACCTTGTAATTTTAGGGAG+TGG + chr7.1:52152069-52152088 MS.gene010934:intron 35.0%
!! CGAGAAGCACAATATTGTTT+TGG + chr7.1:52152118-52152137 MS.gene010934:CDS 35.0%
AATCGATTGTTGTGAGGACT+TGG + chr7.1:52151619-52151638 MS.gene010934:intron 40.0%
AGCCACTCCCTAAAATTACA+AGG - chr7.1:52152074-52152093 None:intergenic 40.0%
ATGCACTAAGAAGGATCTAG+AGG + chr7.1:52151301-52151320 MS.gene010934:CDS 40.0%
CACTACACCTCAACTTATTG+AGG + chr7.1:52151829-52151848 MS.gene010934:intron 40.0%
CTCCTAGGTACAAAAGATCA+TGG + chr7.1:52151102-52151121 MS.gene010934:CDS 40.0%
! CACCATGATCTTTTGTACCT+AGG - chr7.1:52151107-52151126 None:intergenic 40.0%
! CTCAATAAGTTGAGGTGTAG+TGG - chr7.1:52151831-52151850 None:intergenic 40.0%
! GAGCTTCAATTGTTGATGGA+TGG + chr7.1:52152151-52152170 MS.gene010934:CDS 40.0%
! GCTTCAATTGTTGATGGATG+GGG + chr7.1:52152153-52152172 MS.gene010934:CDS 40.0%
! TCTTTTGTACCTAGGAGACA+CGG - chr7.1:52151099-52151118 None:intergenic 40.0%
!! AATTTTAGGGAGTGGCTGTA+AGG + chr7.1:52152077-52152096 MS.gene010934:intron 40.0%
CACTTGGAACATCTGGTAAC+TGG - chr7.1:52151427-52151446 None:intergenic 45.0%
CAGTTACCAGATGTTCCAAG+TGG + chr7.1:52151425-52151444 MS.gene010934:CDS 45.0%
GAGGGAGCTTCAATTGTTGA+TGG + chr7.1:52152147-52152166 MS.gene010934:CDS 45.0%
TCAGTGATGTGGATGTTAGC+TGG - chr7.1:52151476-52151495 None:intergenic 45.0%
TGCAAACCACTTGGAACATC+TGG - chr7.1:52151434-52151453 None:intergenic 45.0%
TGGCTGTAAGGATTCGTGAT+GGG + chr7.1:52152089-52152108 MS.gene010934:CDS 45.0%
! GAGCTGTCTTTTTACCAACC+TGG + chr7.1:52151329-52151348 MS.gene010934:CDS 45.0%
! TTTGGTGGACAATCCACCAA+AGG + chr7.1:52152385-52152404 MS.gene010934:intron 45.0%
!! ATAATAAAATATTGTTAAAT+AGG + chr7.1:52152519-52152538 MS.gene010934:intron 5.0%
!!! TTTTTTAATTATAAAATTGA+AGG + chr7.1:52152459-52152478 MS.gene010934:intron 5.0%
GGCTGTAAGGATTCGTGATG+GGG + chr7.1:52152090-52152109 MS.gene010934:CDS 50.0%
GTGGCTGTAAGGATTCGTGA+TGG + chr7.1:52152088-52152107 MS.gene010934:CDS 50.0%
CTGCAACAACCGTGTCTCCT+AGG + chr7.1:52151087-52151106 MS.gene010934:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 52151038 52152561 52151038 ID=MS.gene010934
chr7.1 mRNA 52151038 52152561 52151038 ID=MS.gene010934.t1;Parent=MS.gene010934
chr7.1 exon 52151038 52151524 52151038 ID=MS.gene010934.t1.exon1;Parent=MS.gene010934.t1
chr7.1 CDS 52151038 52151524 52151038 ID=cds.MS.gene010934.t1;Parent=MS.gene010934.t1
chr7.1 exon 52151720 52151814 52151720 ID=MS.gene010934.t1.exon2;Parent=MS.gene010934.t1
chr7.1 CDS 52151720 52151814 52151720 ID=cds.MS.gene010934.t1;Parent=MS.gene010934.t1
chr7.1 exon 52152085 52152249 52152085 ID=MS.gene010934.t1.exon3;Parent=MS.gene010934.t1
chr7.1 CDS 52152085 52152249 52152085 ID=cds.MS.gene010934.t1;Parent=MS.gene010934.t1
chr7.1 exon 52152541 52152561 52152541 ID=MS.gene010934.t1.exon4;Parent=MS.gene010934.t1
chr7.1 CDS 52152541 52152561 52152541 ID=cds.MS.gene010934.t1;Parent=MS.gene010934.t1
Gene Sequence

>MS.gene010934

ATGATTCAAAACATTTTCACTTTCTTACCAATCAAACATGCAATTGCAACTGCAACAACCGTGTCTCCTAGGTACAAAAGATCATGGTGTCATAATCGCCGATTCTTGTTTGATAGAGACTTATGTTTCCGATATAGCCAACAAAATTTGGCTGCAATAGTTAATCATTTATTCAATTCTCATGAAGGTGACGAAATTAAAACGTTTCAGTTACATATTGATCCTGTTGAGATTGAAGTTTTGATTAAGAGATGGTTGCAAATATGCACTAAGAAGGATCTAGAGGATCTTGAGCTGTCTTTTTACCAACCTGGTTTCACAATTGAATCTACTGTTTTTAACGCACTGCACAAGTTAAAAACACTAAAATTGGTTCAATGTGTGATCCAGTTACCAGATGTTCCAAGTGGTTTGCAATTTTTGCAAAAGCTAAAGCCAGCTAACATCCACATCACTGAAGAAATGTCTAGTATGTTGATGGAGCATTGTAAGATGCTTGAAATGATTGTTTTAATTAATTGCTCTACAATTAAGAAATTGAAATTAATTGCTAAACCAAATAAACATTTCAAAGATTTGAGAATCGATTGTTGTGAGGACTTGGAAGAGATTGAAATCGATTCACCAACTCTTCTTTCCATTTTTTATCATGGAAAATTTCCAATTGTTCGAATTTCTCAAGGGATGCAATTGTACGATGCTTTCTTTCGCTTTACACCATCAAAAGAATACATGCAATCTACTCAGCTAGAAGCTCTTGCTAAAGATTTCTCACATGTCAGCATTCTCACCACTACACCTCAACTTATTGAGGTATATATTTTTTTTTGAAAGACTTATTGAGGTATATATATAAACAAGCATATGCTTATTCTTATTTATTTACATTTCACTATTTACTATTTTATTTAATTACTTACAAACTATATCATGCAATATATCTATATACATTTTTTTTTGACCAAATCTATATGCATTTATTATTATTATTTAAATTAATTGATGCCTTTATTAATATGCATAGATTATTAAACCTTGTAATTTTAGGGAGTGGCTGTAAGGATTCGTGATGGGGTATTTCGAGAAGCACAATATTGTTTTGGAAATTTGAGGGAGCTTCAATTGTTGATGGATGGGGCAATATTTTGCAATCCATACGATATAACTATGTTTCTCAAAAATTGTCCATCTTTGGTGAAATTGTTCATTGATGTAAGTACTACTACTTCATTCTATTAGTTAAGACTAAAATTTTAATTAATCTTTTATTGATATGAATCTAAAAGTATATGTATTATTTTTTAAAGATTGGTATTTAGATCTCAGCCAATCCATGACATTTATTCTTTTGGTGGACAATCCACCAAAGGATAATTGAGTAATTCTAAATGGATAGAATTGCTTGCAATCTTGATTATTATTTTTTTAATTATAAAATTGAAGGTGAAGTCAATATTTATAACTAATGGTTGCGAAACAAAATAATAAAATATTGTTAAATAGGAAGAAGAAGAAGAAGAATAA
Protein sequence

>MS.gene010934.t1

MIQNIFTFLPIKHAIATATTVSPRYKRSWCHNRRFLFDRDLCFRYSQQNLAAIVNHLFNSHEGDEIKTFQLHIDPVEIEVLIKRWLQICTKKDLEDLELSFYQPGFTIESTVFNALHKLKTLKLVQCVIQLPDVPSGLQFLQKLKPANIHITEEMSSMLMEHWMQLYDAFFRFTPSKEYMQSTQLEALAKDFSHGVAVRIRDGVFREAQYCFGNLRELQLLMDGAIFCNPYDITMFLKNCPSLVKLFIDEEEEEE