AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059677


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059677.t1 MTR_5g014260 99.398 166 1 0 1 166 1 166 1.36e-120 337
MS.gene059677.t1 MTR_5g014260 99.200 125 1 0 1 125 1 125 2.29e-87 252
MS.gene059677.t1 MTR_4g084110 59.880 167 54 3 1 166 1 155 2.82e-69 207
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059677.t1 AT1G32470 83.133 166 28 0 1 166 1 166 4.67e-94 270
MS.gene059677.t1 AT2G35370 83.133 166 27 1 1 166 1 165 2.24e-89 258
MS.gene059677.t1 AT2G35120 58.929 168 55 3 1 166 1 156 1.52e-64 195

Find 46 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAACTGAACCGCCAGGTTC+TGG 0.305688 5.1:+7069714 None:intergenic
ATCATCCATCCATCTTCATA+TGG 0.339685 5.1:+7069208 None:intergenic
GTTACAAAGGGTAACGGTTT+CGG 0.348504 5.1:-7069696 MS.gene059677:CDS
AAACATCTGGAGATGGAAAA+AGG 0.352185 5.1:+7070358 None:intergenic
TCAACAATCTCACCAGATAT+TGG 0.373303 5.1:+7069633 None:intergenic
ATCTCCAGATGTTTCTCAAC+TGG 0.379569 5.1:-7070349 MS.gene059677:intron
TCTTGGAGAGGTTGTGTTTG+TGG 0.407524 5.1:-7069742 MS.gene059677:CDS
CGGAGCTGTTGAAAGTGTTA+AGG 0.409242 5.1:-7069676 MS.gene059677:CDS
GATGTAAACTCTCCAATATC+TGG 0.410884 5.1:-7069645 MS.gene059677:CDS
ATCTGAATTAGAAGCCTTGT+TGG 0.425384 5.1:-7069164 MS.gene059677:CDS
AGTATGCATCTTCACATGAA+TGG 0.426720 5.1:-7070225 MS.gene059677:CDS
TAACAATGGCACTGAGGATG+TGG 0.446358 5.1:-7070444 None:intergenic
AGAAGAGAGTTTGAGAGCAT+TGG 0.453540 5.1:+7070408 None:intergenic
GATAAGCTCACCGGAAAACC+TGG 0.464278 5.1:-7069603 MS.gene059677:CDS
TGTTGGTTGCAGGACCATCT+TGG 0.467787 5.1:-7069759 MS.gene059677:intron
GAAGGCTCAGTAGCCACTAT+TGG 0.468590 5.1:-7070193 MS.gene059677:CDS
TCTGAATTAGAAGCCTTGTT+GGG 0.485713 5.1:-7069163 MS.gene059677:CDS
TCATCCATCCATCTTCATAT+GGG 0.487407 5.1:+7069209 None:intergenic
GTATGCATCTTCACATGAAT+GGG 0.495142 5.1:-7070224 MS.gene059677:CDS
GATACCAGTTGAGAAACATC+TGG 0.497324 5.1:+7070345 None:intergenic
AGAAGCCTTGTTGGGTGCAA+AGG 0.506140 5.1:-7069155 MS.gene059677:CDS
AATGAATGAATTACCAGGCC+AGG 0.510526 5.1:+7069585 None:intergenic
TTTGTGGAGCTTCCAGAACC+TGG 0.512073 5.1:-7069726 MS.gene059677:CDS
TCTAATTCAGATGGATCACT+TGG 0.513292 5.1:+7069175 None:intergenic
TGGTATCACTGACCATGCTC+AGG 0.528384 5.1:-7070173 MS.gene059677:intron
GCTCACCGGAAAACCTGGCC+TGG 0.529026 5.1:-7069598 MS.gene059677:intron
AACTCAAGCCCATATGAAGA+TGG 0.530377 5.1:-7069217 MS.gene059677:CDS
AGGGGAGAGATGTAATCTTG+AGG 0.555174 5.1:+7070381 None:intergenic
CATGAATGGGTGAAGCATGA+AGG 0.562003 5.1:-7070211 MS.gene059677:CDS
CCCTTTGTAACTGAACCGCC+AGG 0.564034 5.1:+7069708 None:intergenic
CAAGCCCATATGAAGATGGA+TGG 0.567565 5.1:-7069213 MS.gene059677:CDS
AACAAGGCTTCTAATTCAGA+TGG 0.567704 5.1:+7069166 None:intergenic
ACCTGGCGGTTCAGTTACAA+AGG 0.580268 5.1:-7069709 MS.gene059677:CDS
AGTTGAGAAACATCTGGAGA+TGG 0.581853 5.1:+7070351 None:intergenic
GTTGCAGGACCATCTTGGAG+AGG 0.582318 5.1:-7069754 MS.gene059677:intron
GGTTCAGTTACAAAGGGTAA+CGG 0.588941 5.1:-7069702 MS.gene059677:CDS
CAAACACAACCTCTCCAAGA+TGG 0.593260 5.1:+7069745 None:intergenic
GAGGTTAATGATAAGCTCAC+CGG 0.595144 5.1:-7069612 MS.gene059677:CDS
AATATCTGGTGAGATTGTTG+AGG 0.595757 5.1:-7069631 MS.gene059677:CDS
AACAATGGCACTGAGGATGT+GGG 0.614850 5.1:-7070443 None:intergenic
CCTGGCGGTTCAGTTACAAA+GGG 0.619186 5.1:-7069708 MS.gene059677:CDS
ATGGTCAGTGATACCAATAG+TGG 0.628719 5.1:+7070180 None:intergenic
GTACTCCTTTGCACCCAACA+AGG 0.634212 5.1:+7069150 None:intergenic
GCAGTTAACTAACCTGAGCA+TGG 0.648601 5.1:+7070161 None:intergenic
GTGGAGCTTCCAGAACCTGG+CGG 0.691995 5.1:-7069723 MS.gene059677:CDS
TAGTCTTAACAATGGCACTG+AGG 0.723094 5.1:-7070450 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAGATTAATTACTTAGAAA+TGG - chr5.1:7070018-7070037 MS.gene059677:intron 20.0%
!! GTACATTTATGAAAAATAAG+CGG - chr5.1:7070154-7070173 MS.gene059677:intron 20.0%
!! TGAATTAGACTTTAATTACT+AGG - chr5.1:7069605-7069624 MS.gene059677:CDS 20.0%
!!! TAAATAAATTTTTGCAGTGT+TGG - chr5.1:7069296-7069315 MS.gene059677:intron 20.0%
! AATCATTACAACTTAAGTGA+AGG - chr5.1:7069746-7069765 MS.gene059677:CDS 25.0%
! GTTTAATTAATTGCACTTGT+TGG - chr5.1:7069777-7069796 MS.gene059677:intron 25.0%
!! GCTAGTATTTTATCTTTTGT+CGG + chr5.1:7069705-7069724 None:intergenic 25.0%
!!! ATACGAATTAGTCTGTTTTT+GGG - chr5.1:7069504-7069523 MS.gene059677:intron 25.0%
!!! ATTAACTCACTCTCATTTTT+AGG - chr5.1:7069988-7070007 MS.gene059677:intron 25.0%
!!! TATACGAATTAGTCTGTTTT+TGG - chr5.1:7069503-7069522 MS.gene059677:intron 25.0%
ACATATTGTGGAGAATGTTA+AGG + chr5.1:7069427-7069446 None:intergenic 30.0%
ATTGAGCTAAGAGTTAAATG+AGG - chr5.1:7069658-7069677 MS.gene059677:CDS 30.0%
CATTCAACTTGATAGGAAAA+AGG + chr5.1:7069250-7069269 None:intergenic 30.0%
GAGTTAATGAATGAATTACC+AGG + chr5.1:7069976-7069995 None:intergenic 30.0%
! AAAAGGAGGGTATATATGAA+AGG + chr5.1:7069233-7069252 None:intergenic 30.0%
!! TAAATTTTTGCAGTGTTGGA+TGG - chr5.1:7069300-7069319 MS.gene059677:intron 30.0%
AAACATCTGGAGATGGAAAA+AGG + chr5.1:7069198-7069217 None:intergenic 35.0%
AACAAGGCTTCTAATTCAGA+TGG + chr5.1:7070390-7070409 None:intergenic 35.0%
AAGACATAAGTGAACTAGAG+GGG - chr5.1:7070132-7070151 MS.gene059677:intron 35.0%
AATATCTGGTGAGATTGTTG+AGG - chr5.1:7069922-7069941 MS.gene059677:intron 35.0%
AGTATGCATCTTCACATGAA+TGG - chr5.1:7069328-7069347 MS.gene059677:intron 35.0%
ATCATCCATCCATCTTCATA+TGG + chr5.1:7070348-7070367 None:intergenic 35.0%
CAACTTGATAGGAAAAAGGA+GGG + chr5.1:7069246-7069265 None:intergenic 35.0%
CCACATTCATTCAACTTGAT+AGG + chr5.1:7069257-7069276 None:intergenic 35.0%
GAAGACATAAGTGAACTAGA+GGG - chr5.1:7070131-7070150 MS.gene059677:intron 35.0%
GATGTAAACTCTCCAATATC+TGG - chr5.1:7069908-7069927 MS.gene059677:intron 35.0%
GTATGCATCTTCACATGAAT+GGG - chr5.1:7069329-7069348 MS.gene059677:intron 35.0%
TCAACAATCTCACCAGATAT+TGG + chr5.1:7069923-7069942 None:intergenic 35.0%
TCAACTTGATAGGAAAAAGG+AGG + chr5.1:7069247-7069266 None:intergenic 35.0%
TCATCCATCCATCTTCATAT+GGG + chr5.1:7070347-7070366 None:intergenic 35.0%
TCTAATTCAGATGGATCACT+TGG + chr5.1:7070381-7070400 None:intergenic 35.0%
TGAAGACATAAGTGAACTAG+AGG - chr5.1:7070130-7070149 MS.gene059677:intron 35.0%
! ATCTGAATTAGAAGCCTTGT+TGG - chr5.1:7070389-7070408 MS.gene059677:CDS 35.0%
! GGAGTACACAAAATTTTGTG+AGG - chr5.1:7070419-7070438 MS.gene059677:CDS 35.0%
!! CCTATCAAGTTGAATGAATG+TGG - chr5.1:7069254-7069273 MS.gene059677:intron 35.0%
!! TCTGAATTAGAAGCCTTGTT+GGG - chr5.1:7070390-7070409 MS.gene059677:CDS 35.0%
!!! GAATTAGTCTGTTTTTGGGT+CGG - chr5.1:7069508-7069527 MS.gene059677:intron 35.0%
AACTCAAGCCCATATGAAGA+TGG - chr5.1:7070336-7070355 MS.gene059677:intron 40.0%
AATCTCACAGTTCACTTGTG+GGG + chr5.1:7069479-7069498 None:intergenic 40.0%
AATGAATGAATTACCAGGCC+AGG + chr5.1:7069971-7069990 None:intergenic 40.0%
AGTTGAGAAACATCTGGAGA+TGG + chr5.1:7069205-7069224 None:intergenic 40.0%
ATCTCCAGATGTTTCTCAAC+TGG - chr5.1:7069204-7069223 MS.gene059677:CDS 40.0%
ATCTGGAGATGGAAAAAGGA+GGG + chr5.1:7069194-7069213 None:intergenic 40.0%
ATGGTCAGTGATACCAATAG+TGG + chr5.1:7069376-7069395 None:intergenic 40.0%
CAATCTCACAGTTCACTTGT+GGG + chr5.1:7069480-7069499 None:intergenic 40.0%
GAGGTTAATGATAAGCTCAC+CGG - chr5.1:7069941-7069960 MS.gene059677:intron 40.0%
GATACCAGTTGAGAAACATC+TGG + chr5.1:7069211-7069230 None:intergenic 40.0%
GGTTCAGTTACAAAGGGTAA+CGG - chr5.1:7069851-7069870 MS.gene059677:intron 40.0%
TCAATCTCACAGTTCACTTG+TGG + chr5.1:7069481-7069500 None:intergenic 40.0%
TGGAGAATGTTAAGGAGTAG+AGG + chr5.1:7069419-7069438 None:intergenic 40.0%
! AGAAGAGAGTTTGAGAGCAT+TGG + chr5.1:7069148-7069167 None:intergenic 40.0%
! GTTACAAAGGGTAACGGTTT+CGG - chr5.1:7069857-7069876 MS.gene059677:intron 40.0%
! TAATTGCACTTGTTGGTTGC+AGG - chr5.1:7069784-7069803 MS.gene059677:intron 40.0%
AGGGGAGAGATGTAATCTTG+AGG + chr5.1:7069175-7069194 None:intergenic 45.0%
ATCTCACAGTTCACTTGTGG+GGG + chr5.1:7069478-7069497 None:intergenic 45.0%
CAAACACAACCTCTCCAAGA+TGG + chr5.1:7069811-7069830 None:intergenic 45.0%
CAAGCCCATATGAAGATGGA+TGG - chr5.1:7070340-7070359 MS.gene059677:intron 45.0%
CATCTGGAGATGGAAAAAGG+AGG + chr5.1:7069195-7069214 None:intergenic 45.0%
CATGAATGGGTGAAGCATGA+AGG - chr5.1:7069342-7069361 MS.gene059677:intron 45.0%
CGCTTTGCATGGACATATTG+TGG + chr5.1:7069439-7069458 None:intergenic 45.0%
GCAGTTAACTAACCTGAGCA+TGG + chr5.1:7069395-7069414 None:intergenic 45.0%
TCTGGAGATGGAAAAAGGAG+GGG + chr5.1:7069193-7069212 None:intergenic 45.0%
TCTTGGAGAGGTTGTGTTTG+TGG - chr5.1:7069811-7069830 MS.gene059677:intron 45.0%
! AATTACCAGGCCAGGTTTTC+CGG + chr5.1:7069963-7069982 None:intergenic 45.0%
!! CAAAGCGCTCTGGCTTTAAA+TGG - chr5.1:7069452-7069471 MS.gene059677:intron 45.0%
!! CGGAGCTGTTGAAAGTGTTA+AGG - chr5.1:7069877-7069896 MS.gene059677:intron 45.0%
ACCTGGCGGTTCAGTTACAA+AGG - chr5.1:7069844-7069863 MS.gene059677:intron 50.0%
CCTGGCGGTTCAGTTACAAA+GGG - chr5.1:7069845-7069864 MS.gene059677:intron 50.0%
GAAGGCTCAGTAGCCACTAT+TGG - chr5.1:7069360-7069379 MS.gene059677:intron 50.0%
GATAAGCTCACCGGAAAACC+TGG - chr5.1:7069950-7069969 MS.gene059677:intron 50.0%
GTACTCCTTTGCACCCAACA+AGG + chr5.1:7070406-7070425 None:intergenic 50.0%
TGGTATCACTGACCATGCTC+AGG - chr5.1:7069380-7069399 MS.gene059677:intron 50.0%
TTTGTGGAGCTTCCAGAACC+TGG - chr5.1:7069827-7069846 MS.gene059677:intron 50.0%
! TAAAGCCAGAGCGCTTTGCA+TGG + chr5.1:7069450-7069469 None:intergenic 50.0%
! TATGTCCATGCAAAGCGCTC+TGG - chr5.1:7069442-7069461 MS.gene059677:intron 50.0%
! TGTTGGTTGCAGGACCATCT+TGG - chr5.1:7069794-7069813 MS.gene059677:intron 50.0%
!! AGAAGCCTTGTTGGGTGCAA+AGG - chr5.1:7070398-7070417 MS.gene059677:CDS 50.0%
CCCTTTGTAACTGAACCGCC+AGG + chr5.1:7069848-7069867 None:intergenic 55.0%
GTAACTGAACCGCCAGGTTC+TGG + chr5.1:7069842-7069861 None:intergenic 55.0%
GTTGCAGGACCATCTTGGAG+AGG - chr5.1:7069799-7069818 MS.gene059677:intron 55.0%
GTGGAGCTTCCAGAACCTGG+CGG - chr5.1:7069830-7069849 MS.gene059677:intron 60.0%
GCTCACCGGAAAACCTGGCC+TGG - chr5.1:7069955-7069974 MS.gene059677:intron 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 7069114 7070461 7069114 ID=MS.gene059677
chr5.1 mRNA 7069114 7070461 7069114 ID=MS.gene059677.t1;Parent=MS.gene059677
chr5.1 exon 7070350 7070461 7070350 ID=MS.gene059677.t1.exon1;Parent=MS.gene059677.t1
chr5.1 CDS 7070350 7070461 7070350 ID=cds.MS.gene059677.t1;Parent=MS.gene059677.t1
chr5.1 exon 7070174 7070262 7070174 ID=MS.gene059677.t1.exon2;Parent=MS.gene059677.t1
chr5.1 CDS 7070174 7070262 7070174 ID=cds.MS.gene059677.t1;Parent=MS.gene059677.t1
chr5.1 exon 7069599 7069769 7069599 ID=MS.gene059677.t1.exon3;Parent=MS.gene059677.t1
chr5.1 CDS 7069599 7069769 7069599 ID=cds.MS.gene059677.t1;Parent=MS.gene059677.t1
chr5.1 exon 7069114 7069242 7069114 ID=MS.gene059677.t1.exon4;Parent=MS.gene059677.t1
chr5.1 CDS 7069114 7069242 7069114 ID=cds.MS.gene059677.t1;Parent=MS.gene059677.t1
Gene Sequence

>MS.gene059677

ATGGCACTGAGGATGTGGGCTTCTTCAACTGCCAATGCTCTCAAACTCTCTTCTTCTTCCTCAAGATTACATCTCTCCCCTCCTTTTTCCATCTCCAGATGTTTCTCAACTGGTATCCTTTCATATATACCCTCCTTTTTCCTATCAAGTTGAATGAATGTGGAAACATATATGTATGTATTTAAATAAATTTTTGCAGTGTTGGATGGACTCAAGTATGCATCTTCACATGAATGGGTGAAGCATGAAGGCTCAGTAGCCACTATTGGTATCACTGACCATGCTCAGGTTAGTTAACTGCACCTCTACTCCTTAACATTCTCCACAATATGTCCATGCAAAGCGCTCTGGCTTTAAATGGCCCCCACAAGTGAACTGTGAGATTGAACTATACGAATTAGTCTGTTTTTGGGTCGGATACAGAGTTTCAAAAAAAAAAAAAAAACTCAACTGAATTGTGTATGTGTTTCTAGTTGTGTGCGCATGTACTTTGAATTAGACTTTAATTACTAGGACTTATAAGTGAACTACATAATTCGACTGAATTGAGCTAAGAGTTAAATGAGGAAAATGATCGAGATTTAAACTCCGACAAAAGATAAAATACTAGCATCAAACTAATATAATAACATAATCATTACAACTTAAGTGAAGGCTGAAACTGTTTAATTAATTGCACTTGTTGGTTGCAGGACCATCTTGGAGAGGTTGTGTTTGTGGAGCTTCCAGAACCTGGCGGTTCAGTTACAAAGGGTAACGGTTTCGGAGCTGTTGAAAGTGTTAAGGCAACAAGTGATGTAAACTCTCCAATATCTGGTGAGATTGTTGAGGTTAATGATAAGCTCACCGGAAAACCTGGCCTGGTAATTCATTCATTAACTCACTCTCATTTTTAGGACTAGAAGAAGATTAATTACTTAGAAATGGCTTAAGTACTGATTGAATATAAGAGCTTATGAATAAGTTGTTTTAATTTAATTTAAAATCAAAATAGAGAATAATAAACTCTGCAAAGCTGAAGACATAAGTGAACTAGAGGGGTACATTTATGAAAAATAAGCGGAAAACAACTTAGAAACATATTATAAGCTATTTACACAAATGTTTATGTCATGAGTCATGACTTATGAAATAAGTCAACATTGAAATAAGTCTTTAGATTTATATTAGTAGCTTACACATGTTCATACTTATTTATTTTTACTTTTGTGACTTGAAGATCAACTCAAGCCCATATGAAGATGGATGGATGATCAAAATAAAGCCAAGTGATCCATCTGAATTAGAAGCCTTGTTGGGTGCAAAGGAGTACACAAAATTTTGTGAGGAAGAAGATGCTGCACATTGA

Protein sequence

>MS.gene059677.t1

MALRMWASSTANALKLSSSSSRLHLSPPFSISRCFSTVLDGLKYASSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGGSVTKGNGFGAVESVKATSDVNSPISGEIVEVNDKLTGKPGLINSSPYEDGWMIKIKPSDPSELEALLGAKEYTKFCEEEDAAH