AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051903


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051903.t1 MTR_0699s0020 100.000 112 0 0 1 112 1 112 2.57e-79 228
MS.gene051903.t1 MTR_0699s0010 99.107 112 1 0 1 112 1 112 1.25e-78 226
MS.gene051903.t1 MTR_5g081705 94.643 112 6 0 1 112 26 137 5.74e-77 223
MS.gene051903.t1 MTR_5g081705 94.949 99 5 0 1 99 26 124 2.98e-67 198
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051903.t1 AT1G74270 91.964 112 9 0 1 112 1 112 6.63e-74 214
MS.gene051903.t1 AT1G07070 91.071 112 10 0 1 112 1 112 7.40e-74 214
MS.gene051903.t1 AT3G55750 87.387 111 14 0 2 112 1 111 4.97e-71 207
MS.gene051903.t1 AT1G41880 86.486 111 15 0 2 112 1 111 7.54e-71 207
MS.gene051903.t1 AT1G41880 86.486 111 15 0 2 112 1 111 7.54e-71 207

Find 45 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGATTTGATTTGAATT+TGG 0.236788 7.1:+6141911 None:intergenic
TGGTGTTCACTCCTTCAATT+TGG 0.242520 7.1:+6142069 None:intergenic
GTAAATTATTACCATTGATT+TGG 0.266957 7.1:+6141887 None:intergenic
TAAATTATTACCATTGATTT+GGG 0.343670 7.1:+6141888 None:intergenic
GCCCCATATGCAACGGTAAT+GGG 0.353096 7.1:+6141974 None:intergenic
GAACCCATTACCGTTGCATA+TGG 0.373177 7.1:-6141977 MS.gene051903:CDS
GGTTTACCTCATATGTTACT+TGG 0.390121 7.1:+6141765 None:intergenic
CCAGAGATGTGTTTGGGTAC+TGG 0.398125 7.1:+6142093 None:intergenic
TTGGTATGCCGGCAAGAAAA+TGG 0.403183 7.1:-6142033 MS.gene051903:CDS
ATTTGGACCAGAGATGTGTT+TGG 0.405595 7.1:+6142086 None:intergenic
GACGTCAAGGAGAGCGTGTC+AGG 0.412439 7.1:-6143337 MS.gene051903:intron
TTTGGACCAGAGATGTGTTT+GGG 0.422500 7.1:+6142087 None:intergenic
TGCCCCATATGCAACGGTAA+TGG 0.448613 7.1:+6141973 None:intergenic
AACCCATTACCGTTGCATAT+GGG 0.460048 7.1:-6141976 MS.gene051903:CDS
ACATCTCTGGTCCAAATTGA+AGG 0.462436 7.1:-6142080 MS.gene051903:CDS
TACGTGAGGGGTACAATCCT+TGG 0.470557 7.1:-6142243 MS.gene051903:CDS
GTACAATCCTTGGATACAAA+AGG 0.498010 7.1:-6142233 MS.gene051903:intron
ATACCAAGCTACCTCTTCCT+TGG 0.508204 7.1:+6142049 None:intergenic
GAAGAGGTAGCTTGGTATGC+CGG 0.510952 7.1:-6142044 MS.gene051903:CDS
GGTTCCGTTCTTCTTCACCT+TGG 0.512346 7.1:+6141995 None:intergenic
GTTTACCTCATATGTTACTT+GGG 0.516767 7.1:+6141766 None:intergenic
AAATCTTCCTCCCAAATCAA+TGG 0.516979 7.1:-6141898 MS.gene051903:intron
GTTTGGGTACTGGTTTACTT+TGG 0.518411 7.1:+6142103 None:intergenic
ACCCATTACCGTTGCATATG+GGG 0.524799 7.1:-6141975 MS.gene051903:CDS
GCATATGGGGCAAGGTTACA+AGG 0.526923 7.1:-6141962 MS.gene051903:CDS
CCAGTACCCAAACACATCTC+TGG 0.530530 7.1:-6142093 MS.gene051903:CDS
TTGTATTAGGCTTTACGTGA+GGG 0.535618 7.1:-6142256 MS.gene051903:intron
AGGAGTGAACACCAAGGAAG+AGG 0.555068 7.1:-6142060 MS.gene051903:CDS
ATGTACCCAAGTAACATATG+AGG 0.563414 7.1:-6141771 None:intergenic
GGCATATATCTACAAGGCCA+AGG 0.574061 7.1:-6142012 MS.gene051903:CDS
GGCAAGGTTACAAGGCCTCA+TGG 0.577972 7.1:-6141954 MS.gene051903:CDS
TTTGTATTAGGCTTTACGTG+AGG 0.589429 7.1:-6142257 MS.gene051903:intron
TTACCGTTGCATATGGGGCA+AGG 0.593071 7.1:-6141970 MS.gene051903:CDS
ACACCAAGGAAGAGGTAGCT+TGG 0.593143 7.1:-6142052 MS.gene051903:CDS
TGTATTAGGCTTTACGTGAG+GGG 0.606295 7.1:-6142255 MS.gene051903:intron
AAGATGGTGAAGGGACGTCA+AGG 0.609822 7.1:-6143350 MS.gene051903:CDS
TGCTGCTGTGAAGATGGTGA+AGG 0.610958 7.1:-6143360 None:intergenic
ATTATTACCATTGATTTGGG+AGG 0.614066 7.1:+6141891 None:intergenic
AAGGCCAAGGTGAAGAAGAA+CGG 0.630167 7.1:-6141999 MS.gene051903:CDS
GAAAATGGCATATATCTACA+AGG 0.630318 7.1:-6142018 MS.gene051903:CDS
GCTGCTGTGAAGATGGTGAA+GGG 0.632435 7.1:-6143359 None:intergenic
TAACCTTGCCCCATATGCAA+CGG 0.648972 7.1:+6141967 None:intergenic
ACAAGGCCTCATGGTAACAG+TGG 0.683556 7.1:-6141945 MS.gene051903:CDS
ACAATACCACTGTTACCATG+AGG 0.737809 7.1:+6141939 None:intergenic
AATTGAAGGAGTGAACACCA+AGG 0.776962 7.1:-6142066 MS.gene051903:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATGAAAATACAAATAAAAA+TGG + chr7.1:6141824-6141843 None:intergenic 15.0%
!! TAATAAGAATAAAAATGTGT+TGG + chr7.1:6143258-6143277 None:intergenic 15.0%
!! TATAGAAAAGGAAAAAATAA+AGG + chr7.1:6142285-6142304 None:intergenic 15.0%
!!! TAAAGCTATTTTTATAGAAA+AGG + chr7.1:6142297-6142316 None:intergenic 15.0%
!!! TAAATTATTACCATTGATTT+GGG + chr7.1:6143235-6143254 None:intergenic 15.0%
!!! TATCATTGTTTTAATTCATT+TGG - chr7.1:6141883-6141902 MS.gene051903:intron 15.0%
!!! TATCTGTTTTATTTTATGTT+TGG - chr7.1:6142926-6142945 MS.gene051903:intron 15.0%
!!! TTTTGGTTTTATTTTTGTTA+GGG - chr7.1:6142526-6142545 MS.gene051903:intron 15.0%
!! AAAAGACACAAAAACATATT+TGG + chr7.1:6142639-6142658 None:intergenic 20.0%
!! AAATATAGCTGCTAAAAAAT+TGG + chr7.1:6142418-6142437 None:intergenic 20.0%
!! AATATAGCTGCTAAAAAATT+GGG + chr7.1:6142417-6142436 None:intergenic 20.0%
!! TTTCTTGTTCAATTTGTATT+AGG - chr7.1:6142851-6142870 MS.gene051903:intron 20.0%
!!! ATTTTTGTTAGGGATTAAAT+TGG - chr7.1:6142536-6142555 MS.gene051903:intron 20.0%
!!! CTTTTGGTTTTATTTTTGTT+AGG - chr7.1:6142525-6142544 MS.gene051903:intron 20.0%
!!! GTAAATTATTACCATTGATT+TGG + chr7.1:6143236-6143255 None:intergenic 20.0%
!!! TTTTTGTTAGGGATTAAATT+GGG - chr7.1:6142537-6142556 MS.gene051903:intron 20.0%
! TAGTCCAGTTATAAAAATGT+CGG + chr7.1:6142474-6142493 None:intergenic 25.0%
!!! AGGAAGATTTGATTTGAATT+TGG + chr7.1:6143212-6143231 None:intergenic 25.0%
AAAAAAAGAGAGAGAGAAGT+AGG + chr7.1:6142190-6142209 None:intergenic 30.0%
AAAATATTGTGGGACGAAAA+TGG - chr7.1:6142564-6142583 MS.gene051903:intron 30.0%
AAATATTGTGGGACGAAAAT+GGG - chr7.1:6142565-6142584 MS.gene051903:intron 30.0%
ACAAAAATGAAATCTGAACC+TGG - chr7.1:6142445-6142464 MS.gene051903:intron 30.0%
ACATTAGCATGCAGTTAATA+AGG - chr7.1:6141930-6141949 MS.gene051903:CDS 30.0%
AGTCCAGTTATAAAAATGTC+GGG + chr7.1:6142473-6142492 None:intergenic 30.0%
AGTCTCACAAAAACTTATGT+TGG + chr7.1:6142083-6142102 None:intergenic 30.0%
CATTAGCATGCAGTTAATAA+GGG - chr7.1:6141931-6141950 MS.gene051903:CDS 30.0%
GAAAATGGCATATATCTACA+AGG - chr7.1:6143102-6143121 MS.gene051903:intron 30.0%
TAAAATAAGCCAATCCAAAC+AGG + chr7.1:6142051-6142070 None:intergenic 30.0%
! AAGTTTACCTTTTGTATCCA+AGG + chr7.1:6142897-6142916 None:intergenic 30.0%
! ATCACTCCACAAAGTATTAA+GGG + chr7.1:6142378-6142397 None:intergenic 30.0%
! GTTTGGTTTATGAAAATGTC+TGG - chr7.1:6142943-6142962 MS.gene051903:intron 30.0%
!! ATTATTACCATTGATTTGGG+AGG + chr7.1:6143232-6143251 None:intergenic 30.0%
!! GTTCAGATTTCATTTTTGTC+AGG + chr7.1:6142444-6142463 None:intergenic 30.0%
!!! ATGCTATGAGCTGTTTTTAT+AGG + chr7.1:6142246-6142265 None:intergenic 30.0%
!!! TTATCTTGACTTTTTGAGTG+TGG - chr7.1:6143294-6143313 MS.gene051903:intron 30.0%
AAATCTTCCTCCCAAATCAA+TGG - chr7.1:6143222-6143241 MS.gene051903:intron 35.0%
AAATGTCTGGTTAGATGCTT+TGG - chr7.1:6142956-6142975 MS.gene051903:intron 35.0%
AACATGCCCTTAATACTTTG+TGG - chr7.1:6142369-6142388 MS.gene051903:intron 35.0%
AATTGGGTCGCAAAATATTG+TGG - chr7.1:6142553-6142572 MS.gene051903:intron 35.0%
ACTGCATGCTAATGTTTGAA+TGG + chr7.1:6141925-6141944 None:intergenic 35.0%
AGAACTTGTGAAAATCAGCT+GGG + chr7.1:6142158-6142177 None:intergenic 35.0%
ATAGCTGCTAAAAAATTGGG+AGG + chr7.1:6142414-6142433 None:intergenic 35.0%
ATTGGGTCGCAAAATATTGT+GGG - chr7.1:6142554-6142573 MS.gene051903:intron 35.0%
CTCACAAAAACTTATGTTGG+TGG + chr7.1:6142080-6142099 None:intergenic 35.0%
CTTAATACTTTGTGGAGTGA+TGG - chr7.1:6142377-6142396 MS.gene051903:intron 35.0%
GTACAATCCTTGGATACAAA+AGG - chr7.1:6142887-6142906 MS.gene051903:intron 35.0%
GTCCAGTTATAAAAATGTCG+GGG + chr7.1:6142472-6142491 None:intergenic 35.0%
TCGCTAGTATGAATATCTCT+GGG - chr7.1:6142499-6142518 MS.gene051903:intron 35.0%
TTGTATTAGGCTTTACGTGA+GGG - chr7.1:6142864-6142883 MS.gene051903:intron 35.0%
TTTGTATTAGGCTTTACGTG+AGG - chr7.1:6142863-6142882 MS.gene051903:intron 35.0%
! CAAAGTATTAAGGGCATGTT+TGG + chr7.1:6142369-6142388 None:intergenic 35.0%
! CATCACTCCACAAAGTATTA+AGG + chr7.1:6142379-6142398 None:intergenic 35.0%
! GTTTTTGTGAGACTGTTGTT+TGG - chr7.1:6142089-6142108 MS.gene051903:CDS 35.0%
!!! GATATATGCCATTTTCTTGC+CGG + chr7.1:6143098-6143117 None:intergenic 35.0%
AAAATTGGGAGGACCAACAT+AGG + chr7.1:6142403-6142422 None:intergenic 40.0%
AACCCATTACCGTTGCATAT+GGG - chr7.1:6143144-6143163 MS.gene051903:intron 40.0%
AATTGAAGGAGTGAACACCA+AGG - chr7.1:6143054-6143073 MS.gene051903:intron 40.0%
ACAATACCACTGTTACCATG+AGG + chr7.1:6143184-6143203 None:intergenic 40.0%
ACATCTCTGGTCCAAATTGA+AGG - chr7.1:6143040-6143059 MS.gene051903:intron 40.0%
ACTGATGTCTAATGCCTGTT+TGG - chr7.1:6142034-6142053 MS.gene051903:CDS 40.0%
ATTTGGACCAGAGATGTGTT+TGG + chr7.1:6143037-6143056 None:intergenic 40.0%
GAACTTGTGAAAACAGCTCA+TGG - chr7.1:6142113-6142132 MS.gene051903:intron 40.0%
GAGAACTTGTGAAAATCAGC+TGG + chr7.1:6142159-6142178 None:intergenic 40.0%
GTCGCTAGTATGAATATCTC+TGG - chr7.1:6142498-6142517 MS.gene051903:intron 40.0%
TGGTGTTCACTCCTTCAATT+TGG + chr7.1:6143054-6143073 None:intergenic 40.0%
TGTATTAGGCTTTACGTGAG+GGG - chr7.1:6142865-6142884 MS.gene051903:intron 40.0%
TGTCTAATGCCTGTTTGGAT+TGG - chr7.1:6142039-6142058 MS.gene051903:CDS 40.0%
TTATAAAAATGTCGGGGACC+AGG + chr7.1:6142466-6142485 None:intergenic 40.0%
TTTGGACCAGAGATGTGTTT+GGG + chr7.1:6143036-6143055 None:intergenic 40.0%
! GTCCCCGACATTTTTATAAC+TGG - chr7.1:6142467-6142486 MS.gene051903:intron 40.0%
!! GAATATCTCTGGGCTACTTT+TGG - chr7.1:6142509-6142528 MS.gene051903:intron 40.0%
!! GTTTGGGTACTGGTTTACTT+TGG + chr7.1:6143020-6143039 None:intergenic 40.0%
AAGGCCAAGGTGAAGAAGAA+CGG - chr7.1:6143121-6143140 MS.gene051903:intron 45.0%
ACCCATTACCGTTGCATATG+GGG - chr7.1:6143145-6143164 MS.gene051903:intron 45.0%
ATACCAAGCTACCTCTTCCT+TGG + chr7.1:6143074-6143093 None:intergenic 45.0%
GAACCCATTACCGTTGCATA+TGG - chr7.1:6143143-6143162 MS.gene051903:intron 45.0%
GGCATATATCTACAAGGCCA+AGG - chr7.1:6143108-6143127 MS.gene051903:intron 45.0%
TAACCTTGCCCCATATGCAA+CGG + chr7.1:6143156-6143175 None:intergenic 45.0%
TTGAGTGTGGATGCATTGCA+GGG - chr7.1:6143307-6143326 MS.gene051903:intron 45.0%
TTGGTATGCCGGCAAGAAAA+TGG - chr7.1:6143087-6143106 MS.gene051903:intron 45.0%
TTTGAGTGTGGATGCATTGC+AGG - chr7.1:6143306-6143325 MS.gene051903:intron 45.0%
ACAAGGCCTCATGGTAACAG+TGG - chr7.1:6143175-6143194 MS.gene051903:intron 50.0%
ACACCAAGGAAGAGGTAGCT+TGG - chr7.1:6143068-6143087 MS.gene051903:intron 50.0%
AGGAGTGAACACCAAGGAAG+AGG - chr7.1:6143060-6143079 MS.gene051903:intron 50.0%
CCAGAGATGTGTTTGGGTAC+TGG + chr7.1:6143030-6143049 None:intergenic 50.0%
CCAGTACCCAAACACATCTC+TGG - chr7.1:6143027-6143046 MS.gene051903:intron 50.0%
GAAGAGGTAGCTTGGTATGC+CGG - chr7.1:6143076-6143095 MS.gene051903:intron 50.0%
GCATATGGGGCAAGGTTACA+AGG - chr7.1:6143158-6143177 MS.gene051903:intron 50.0%
GCCCCATATGCAACGGTAAT+GGG + chr7.1:6143149-6143168 None:intergenic 50.0%
GGTTCCGTTCTTCTTCACCT+TGG + chr7.1:6143128-6143147 None:intergenic 50.0%
TGCCCCATATGCAACGGTAA+TGG + chr7.1:6143150-6143169 None:intergenic 50.0%
TGTGGAGTGATGGCCTATGT+TGG - chr7.1:6142387-6142406 MS.gene051903:intron 50.0%
TTACCGTTGCATATGGGGCA+AGG - chr7.1:6143150-6143169 MS.gene051903:intron 50.0%
! TACGTGAGGGGTACAATCCT+TGG - chr7.1:6142877-6142896 MS.gene051903:intron 50.0%
GGCAAGGTTACAAGGCCTCA+TGG - chr7.1:6143166-6143185 MS.gene051903:intron 55.0%
! GACGTCAAGGAGAGCGTGTC+AGG - chr7.1:6141783-6141802 MS.gene051903:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 6141773 6143369 6141773 ID=MS.gene051903
chr7.1 mRNA 6141773 6143369 6141773 ID=MS.gene051903.t1;Parent=MS.gene051903
chr7.1 exon 6143338 6143369 6143338 ID=MS.gene051903.t1.exon1;Parent=MS.gene051903.t1
chr7.1 CDS 6143338 6143369 6143338 ID=cds.MS.gene051903.t1;Parent=MS.gene051903.t1
chr7.1 exon 6142234 6142269 6142234 ID=MS.gene051903.t1.exon2;Parent=MS.gene051903.t1
chr7.1 CDS 6142234 6142269 6142234 ID=cds.MS.gene051903.t1;Parent=MS.gene051903.t1
chr7.1 exon 6141899 6142127 6141899 ID=MS.gene051903.t1.exon3;Parent=MS.gene051903.t1
chr7.1 CDS 6141899 6142127 6141899 ID=cds.MS.gene051903.t1;Parent=MS.gene051903.t1
chr7.1 exon 6141773 6141814 6141773 ID=MS.gene051903.t1.exon4;Parent=MS.gene051903.t1
chr7.1 CDS 6141773 6141814 6141773 ID=cds.MS.gene051903.t1;Parent=MS.gene051903.t1
Gene Sequence

>MS.gene051903

ATGGTGAAGGGACGTCAAGGAGAGCGTGTCAGGTACTCTTCGTTTCAGCCATTTTTATTTGTATTTTCATCATCATCGTATATGTTTTTGATATTTAGTTTAGTAGTAATTATCATTGTTTTAATTCATTTGGCTATAGCTAGTTACTACCATTCAAACATTAGCATGCAGTTAATAAGGGATTTGAATAGTATTAAGAAAAAACATCGAGATCAATTTGTTGCTTGAGAAATGTTTTAGACTATTTTGATTTGATTTGTGACTGATGTCTAATGCCTGTTTGGATTGGCTTATTTTAGCTTATCCACCAACATAAGTTTTTGTGAGACTGTTGTTTGGAGAACTTGTGAAAACAGCTCATGGCAATTATCACAGACTTTTTCCCAGCTGATTTTCACAAGTTCTCAGATATCACCTACTTCTCTCTCTCTTTTTTTTTTTTTGTTGACAAAGAGTTTTCTTAAATAAAACCTATAAAAACAGCTCATAGCATATACAAAAATAATTTACCTTTATTTTTTCCTTTTCTATAAAAATAGCTTTATGTTCTCATGATAAGTGCTTGTGCTATAAGCTGCAAATAAGCAGTTTATCCAAACATGCCCTTAATACTTTGTGGAGTGATGGCCTATGTTGGTCCTCCCAATTTTTTAGCAGCTATATTTAATCCTGACAAAAATGAAATCTGAACCTGGTCCCCGACATTTTTATAACTGGACTAATTTGTCGCTAGTATGAATATCTCTGGGCTACTTTTGGTTTTATTTTTGTTAGGGATTAAATTGGGTCGCAAAATATTGTGGGACGAAAATGGGTCTTCACTCTAGTATGTGCTACTGAATTGATAATTTGATTTCTTATGACCAAATATGTTTTTGTGTCTTTTACTCAAAGATCAGTCTGTGTATCTATCTTATTTTTTATGTATCTTTATTTTATCAAATATATAAAACAAGCTAATATATACTTTATGACCAAATATGTTTTTGTGTCTTTTACTCAAAGATCAGTCTGTGTATCTATCTTATTTTTTATGTATCTTTATTTTATCAAATATATAAAACAAGCTAATATATACTTTCTTGTTCAATTTGTATTAGGCTTTACGTGAGGGGTACAATCCTTGGATACAAAAGGTAAACTTTTCTAATGTTATCTGTTTTATTTTATGTTTGGTTTATGAAAATGTCTGGTTAGATGCTTTGGCTTAATTAATACTTACTGTTTTATGCTGTTTTTTAGATCCAAAGTAAACCAGTACCCAAACACATCTCTGGTCCAAATTGAAGGAGTGAACACCAAGGAAGAGGTAGCTTGGTATGCCGGCAAGAAAATGGCATATATCTACAAGGCCAAGGTGAAGAAGAACGGAACCCATTACCGTTGCATATGGGGCAAGGTTACAAGGCCTCATGGTAACAGTGGTATTGTTCGTGCCAAATTCAAATCAAATCTTCCTCCCAAATCAATGGTAATAATTTACCAACACATTTTTATTCTTATTAATTGTGTTTAATAACGTTATCTTGACTTTTTGAGTGTGGATGCATTGCAGGGATCTCGCGTAAGAGTATTTATGTACCCAAGTAACATATGA

Protein sequence

>MS.gene051903.t1

MVKGRQGERVRLYVRGTILGYKRSKVNQYPNTSLVQIEGVNTKEEVAWYAGKKMAYIYKAKVKKNGTHYRCIWGKVTRPHGNSGIVRAKFKSNLPPKSMGSRVRVFMYPSNI