AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58627


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58627.t1 MTR_2g437530 98.131 214 4 0 1 214 1 214 9.34e-141 392
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 61.326 181 58 2 1 171 1 179 3.59e-55 176
MS.gene58627.t1 AT4G20260 68.243 148 43 2 1 145 1 147 4.78e-54 171
MS.gene58627.t1 AT4G20260 67.857 140 45 0 1 140 1 140 1.34e-53 169
MS.gene58627.t1 AT4G20260 60.989 182 58 3 1 171 1 180 1.86e-53 171

Find 35 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAGAAGAACTTGTTAAAAT+TGG 0.213794 2.3:+54142939 MS.gene58627:CDS
AGTTGTTGAAGAAGAGAAAA+AGG 0.260064 2.3:+54143236 MS.gene58627:CDS
TTTGGACCAGCCTTAGTTTC+AGG 0.262260 2.3:+54143087 MS.gene58627:CDS
TCCTCCTCCCGCGGAGAAAC+AGG 0.321981 2.3:+54143326 MS.gene58627:CDS
TCAACAAACTTTCAAGCCTT+TGG 0.364448 2.3:-54143393 None:intergenic
CTTTGACTCATCAAAGGTCT+TGG 0.366152 2.3:-54142300 None:intergenic
GGAAGCAAAAGATGGGTTAC+TGG 0.373360 2.3:+54142201 None:intergenic
TCCTGTTTCTCCGCGGGAGG+AGG 0.385073 2.3:-54143327 None:intergenic
TCTGAAGCATCATCCAAGTT+TGG 0.412649 2.3:+54143069 MS.gene58627:CDS
AATTGAATCTTCTGCAGAAA+AGG 0.424490 2.3:+54143275 MS.gene58627:CDS
TGCAGAAAAGGTTGAAGAAA+AGG 0.428765 2.3:+54143287 MS.gene58627:CDS
GAAAACTGGACCTGAAACTA+AGG 0.436909 2.3:-54143097 None:intergenic
GGGAATCAATAAAGAGTTTG+AGG 0.437077 2.3:+54142497 MS.gene58627:CDS
AACTAAGGCTGGTCCAAACT+TGG 0.441827 2.3:-54143082 None:intergenic
TCAACCGCAGCTGGTTCAAC+CGG 0.454197 2.3:-54143357 None:intergenic
TCTACTTGTTCAACCGCAGC+TGG 0.464029 2.3:-54143366 None:intergenic
TTCTCCGCGGGAGGAGGAGC+CGG 0.468573 2.3:-54143321 None:intergenic
CAAGACCTTTGATGAGTCAA+AGG 0.477303 2.3:+54142301 MS.gene58627:CDS
AGCATCTTCAACTGAAATCA+AGG 0.494963 2.3:+54142563 MS.gene58627:CDS
TCCTCCTGTTTCTCCGCGGG+AGG 0.496545 2.3:-54143330 None:intergenic
AGAAAAGGATGCAGCTGAGC+CGG 0.507989 2.3:+54143302 MS.gene58627:CDS
ACAAACTTTCAAGCCTTTGG+TGG 0.520637 2.3:-54143390 None:intergenic
GTCAAAGAACGTGATGTAGC+AGG 0.529799 2.3:+54142882 MS.gene58627:CDS
GGTTCTTCCCAAGATCAAGA+AGG 0.544230 2.3:+54142232 MS.gene58627:CDS
AAACAAGTGGTGTTAAAGAG+AGG 0.557539 2.3:+54143208 MS.gene58627:CDS
TAAGAAAACAGCTGCTGCTG+AGG 0.571062 2.3:+54142274 MS.gene58627:CDS
AACAAGTGGTGTTAAAGAGA+GGG 0.574339 2.3:+54143209 MS.gene58627:CDS
ACAAACCTTTGACTCATCAA+AGG 0.584760 2.3:-54142306 None:intergenic
TCCTCCCGCGGAGAAACAGG+AGG 0.602952 2.3:+54143329 MS.gene58627:CDS
ACTGGACCTGAAACTAAGGC+TGG 0.610443 2.3:-54143093 None:intergenic
AAAACAGAAGATGAAACAAG+TGG 0.618986 2.3:+54143195 MS.gene58627:CDS
TGAGCCGGCTCCTCCTCCCG+CGG 0.659003 2.3:+54143317 MS.gene58627:CDS
TGAACAAGTAGAACCACCAA+AGG 0.665776 2.3:+54143377 MS.gene58627:CDS
GATGGGTTACTGGACAACAA+AGG 0.677203 2.3:+54142211 None:intergenic
AAAACCGGTTGAACCAGCTG+CGG 0.690812 2.3:+54143353 MS.gene58627:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGCAAAAAATATATGTATA+TGG + chr2.3:54142681-54142700 MS.gene58627:intron 15.0%
!! TCTTCAAAAATAAACAAATA+AGG - chr2.3:54142990-54143009 None:intergenic 15.0%
!!! TTTGCTTTTATATTTTGTTA+CGG - chr2.3:54142668-54142687 None:intergenic 15.0%
!! AAGTAAAAATATCATGTATG+TGG - chr2.3:54142764-54142783 None:intergenic 20.0%
!! AATAGTTCATATATTTGATG+TGG + chr2.3:54142455-54142474 MS.gene58627:intron 20.0%
!!! ATAGAAGAACTTGTTAAAAT+TGG + chr2.3:54142939-54142958 MS.gene58627:CDS 20.0%
!!! ATATATATTTCAGATTTTCC+TGG + chr2.3:54143033-54143052 MS.gene58627:intron 20.0%
!!! GTAAAGTATTTATAGTTTTC+CGG + chr2.3:54142961-54142980 MS.gene58627:intron 20.0%
!!! TGAAAATTTTCCATCAATAT+TGG - chr2.3:54142841-54142860 None:intergenic 20.0%
! AAATAAACAAATAAGGTTGC+CGG - chr2.3:54142983-54143002 None:intergenic 25.0%
! ACATGTATCTGGTTAAAATT+TGG + chr2.3:54142737-54142756 MS.gene58627:intron 25.0%
! CATGTATCTGGTTAAAATTT+GGG + chr2.3:54142738-54142757 MS.gene58627:intron 25.0%
! TTCATATATTTGATGTGGTT+CGG + chr2.3:54142460-54142479 MS.gene58627:intron 25.0%
! TTCTCAAAAACAAAGAAAAC+TGG - chr2.3:54143114-54143133 None:intergenic 25.0%
!! CTTTTATATTTTGTTACGGA+GGG - chr2.3:54142664-54142683 None:intergenic 25.0%
!!! AGTTTTCTTTGTTTTTGAGA+AGG + chr2.3:54143113-54143132 MS.gene58627:CDS 25.0%
AAAACAGAAGATGAAACAAG+TGG + chr2.3:54143195-54143214 MS.gene58627:CDS 30.0%
AATATCACCTTTACAGAGTT+TGG + chr2.3:54142860-54142879 MS.gene58627:intron 30.0%
AATTGAATCTTCTGCAGAAA+AGG + chr2.3:54143275-54143294 MS.gene58627:CDS 30.0%
AGTTGTTGAAGAAGAGAAAA+AGG + chr2.3:54143236-54143255 MS.gene58627:CDS 30.0%
GAAAAAGACACCAATATTGA+TGG + chr2.3:54142828-54142847 MS.gene58627:intron 30.0%
TCAAAAACCTTCTTGATCTT+GGG - chr2.3:54142242-54142261 None:intergenic 30.0%
TTAGACTAGATACATGTATC+TGG + chr2.3:54142726-54142745 MS.gene58627:intron 30.0%
! GCTTTTATATTTTGTTACGG+AGG - chr2.3:54142665-54142684 None:intergenic 30.0%
ACAAACCTTTGACTCATCAA+AGG - chr2.3:54142309-54142328 None:intergenic 35.0%
AGCATCTTCAACTGAAATCA+AGG + chr2.3:54142563-54142582 MS.gene58627:CDS 35.0%
CTCAAAAACCTTCTTGATCT+TGG - chr2.3:54142243-54142262 None:intergenic 35.0%
GGGAATCAATAAAGAGTTTG+AGG + chr2.3:54142497-54142516 MS.gene58627:CDS 35.0%
TCTTTGACCAAACTCTGTAA+AGG - chr2.3:54142870-54142889 None:intergenic 35.0%
TGCAGAAAAGGTTGAAGAAA+AGG + chr2.3:54143287-54143306 MS.gene58627:CDS 35.0%
! AAACAAGTGGTGTTAAAGAG+AGG + chr2.3:54143208-54143227 MS.gene58627:CDS 35.0%
! AACAAGTGGTGTTAAAGAGA+GGG + chr2.3:54143209-54143228 MS.gene58627:CDS 35.0%
!! GTTCGGTATTTTGTTTAGGA+GGG + chr2.3:54142477-54142496 MS.gene58627:intron 35.0%
!!! GTTTTTGTTTCTGTAGTAGC+AGG - chr2.3:54143180-54143199 None:intergenic 35.0%
!!! TGTGGTTCGGTATTTTGTTT+AGG + chr2.3:54142473-54142492 MS.gene58627:intron 35.0%
CAAGACCTTTGATGAGTCAA+AGG + chr2.3:54142301-54142320 MS.gene58627:CDS 40.0%
CTTTGACTCATCAAAGGTCT+TGG - chr2.3:54142303-54142322 None:intergenic 40.0%
GAAAACTGGACCTGAAACTA+AGG - chr2.3:54143100-54143119 None:intergenic 40.0%
TGAACAAGTAGAACCACCAA+AGG + chr2.3:54143377-54143396 MS.gene58627:CDS 40.0%
! TCTGAAGCATCATCCAAGTT+TGG + chr2.3:54143069-54143088 MS.gene58627:CDS 40.0%
!! GGTTCGGTATTTTGTTTAGG+AGG + chr2.3:54142476-54142495 MS.gene58627:intron 40.0%
!! TCAGATACTGCTTTTGATCC+AGG - chr2.3:54143054-54143073 None:intergenic 40.0%
GGAGAAACAGGAGGAAAAAC+CGG + chr2.3:54143338-54143357 MS.gene58627:CDS 45.0%
GGTTCTTCCCAAGATCAAGA+AGG + chr2.3:54142232-54142251 MS.gene58627:CDS 45.0%
GTCAAAGAACGTGATGTAGC+AGG + chr2.3:54142882-54142901 MS.gene58627:CDS 45.0%
TAAGAAAACAGCTGCTGCTG+AGG + chr2.3:54142274-54142293 MS.gene58627:CDS 45.0%
TTTGGACCAGCCTTAGTTTC+AGG + chr2.3:54143087-54143106 MS.gene58627:CDS 45.0%
! AACTAAGGCTGGTCCAAACT+TGG - chr2.3:54143085-54143104 None:intergenic 45.0%
!! TTTTTCCTCCTGTTTCTCCG+CGG - chr2.3:54143337-54143356 None:intergenic 45.0%
AAAACCGGTTGAACCAGCTG+CGG + chr2.3:54143353-54143372 MS.gene58627:CDS 50.0%
ACTGGACCTGAAACTAAGGC+TGG - chr2.3:54143096-54143115 None:intergenic 50.0%
AGAAAAGGATGCAGCTGAGC+CGG + chr2.3:54143302-54143321 MS.gene58627:CDS 50.0%
TCTACTTGTTCAACCGCAGC+TGG - chr2.3:54143369-54143388 None:intergenic 50.0%
!! TTTTCCTCCTGTTTCTCCGC+GGG - chr2.3:54143336-54143355 None:intergenic 50.0%
! TCAACCGCAGCTGGTTCAAC+CGG - chr2.3:54143360-54143379 None:intergenic 55.0%
TCCTCCCGCGGAGAAACAGG+AGG + chr2.3:54143329-54143348 MS.gene58627:CDS 65.0%
TCCTCCTCCCGCGGAGAAAC+AGG + chr2.3:54143326-54143345 MS.gene58627:CDS 65.0%
! TCCTCCTGTTTCTCCGCGGG+AGG - chr2.3:54143333-54143352 None:intergenic 65.0%
! TCCTGTTTCTCCGCGGGAGG+AGG - chr2.3:54143330-54143349 None:intergenic 65.0%
TTCTCCGCGGGAGGAGGAGC+CGG - chr2.3:54143324-54143343 None:intergenic 70.0%
! TGAGCCGGCTCCTCCTCCCG+CGG + chr2.3:54143317-54143336 MS.gene58627:CDS 75.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 54142212 54143404 54142212 ID=MS.gene58627
chr2.3 mRNA 54142212 54143404 54142212 ID=MS.gene58627.t1;Parent=MS.gene58627
chr2.3 exon 54142212 54142322 54142212 ID=MS.gene58627.t1.exon1;Parent=MS.gene58627.t1
chr2.3 CDS 54142212 54142322 54142212 ID=cds.MS.gene58627.t1;Parent=MS.gene58627.t1
chr2.3 exon 54142495 54142584 54142495 ID=MS.gene58627.t1.exon2;Parent=MS.gene58627.t1
chr2.3 CDS 54142495 54142584 54142495 ID=cds.MS.gene58627.t1;Parent=MS.gene58627.t1
chr2.3 exon 54142876 54142960 54142876 ID=MS.gene58627.t1.exon3;Parent=MS.gene58627.t1
chr2.3 CDS 54142876 54142960 54142876 ID=cds.MS.gene58627.t1;Parent=MS.gene58627.t1
chr2.3 exon 54143046 54143404 54143046 ID=MS.gene58627.t1.exon4;Parent=MS.gene58627.t1
chr2.3 CDS 54143046 54143404 54143046 ID=cds.MS.gene58627.t1;Parent=MS.gene58627.t1
Gene Sequence

>MS.gene58627

ATGGGTTACTGGACAACAAAGGTTCTTCCCAAGATCAAGAAGGTTTTTGAGAAGAATAGTACTAAGAAAACAGCTGCTGCTGAGGTTTCCAAGACCTTTGATGAGTCAAAGGTTTGTTTTCTTAAATTTTAAACTTTCATGTACAAATTGAGTGTTTTTTCTTTTTTTTTGTCTTATGTTTTTTTATATACGTTGAAAATGAAAAAGTAGTTCATATATTTGATTTTTTTTTTTTTTTTGACAAATAGTTCATATATTTGATGTGGTTCGGTATTTTGTTTAGGAGGGAATCAATAAAGAGTTTGAGGAAAAGAAAACTGAACTTCAAACAAAAGTACTTGCTGTATATGAAGCATCTTCAACTGAAATCAAGGTAAGAATATACTTATATAATTAAGTATACATATCTATATACATACACATATACATGATCTATATTTTTGTATGTTCCCTCCGTAACAAAATATAAAAGCAAAAAATATATGTATATGGTTCAAATTTAAATCAGATTCATTTAGACTAGATACATGTATCTGGTTAAAATTTGGGCCACATACATGATATTTTTACTTATACATGTATATATGTATGTGTCAAAATATAAAAAATAAGAAGAGAAAAAGACACCAATATTGATGGAAAATTTTCAATATCACCTTTACAGAGTTTGGTCAAAGAACGTGATGTAGCAGGTCTAAAGAAGAACTCAACAGAAGCTCACAAATTCATAGAAGAACTTGTTAAAATTGGTAAAGTATTTATAGTTTTCCGGCAACCTTATTTGTTTATTTTTGAAGAAAAATATATTGATACAAGTGATTATATATATTTCAGATTTTCCTGGATCAAAAGCAGTATCTGAAGCATCATCCAAGTTTGGACCAGCCTTAGTTTCAGGTCCAGTTTTCTTTGTTTTTGAGAAGGTATCAACTTTCATAGTCACAGAAGAGAAAGTTGAAGAAGCACCTGCTACTACAGAAACAAAAACAGAAGATGAAACAAGTGGTGTTAAAGAGAGGGAAATAGTTGTTGAAGAAGAGAAAAAGGAAGAAACTAGTGAGAAAATTGAATCTTCTGCAGAAAAGGTTGAAGAAAAGGATGCAGCTGAGCCGGCTCCTCCTCCCGCGGAGAAACAGGAGGAAAAACCGGTTGAACCAGCTGCGGTTGAACAAGTAGAACCACCAAAGGCTTGA

Protein sequence

>MS.gene58627.t1

MGYWTTKVLPKIKKVFEKNSTKKTAAAEVSKTFDESKEGINKEFEEKKTELQTKVLAVYEASSTEIKSLVKERDVAGLKKNSTEAHKFIEELVKIDFPGSKAVSEASSKFGPALVSGPVFFVFEKVSTFIVTEEKVEEAPATTETKTEDETSGVKEREIVVEEEKKEETSEKIESSAEKVEEKDAAEPAPPPAEKQEEKPVEPAAVEQVEPPKA