AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67220


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67220.t1 MTR_2g088700 92.982 57 4 0 93 149 88 144 4.96e-30 111
MS.gene67220.t1 MTR_2g088700 92.982 57 4 0 93 149 88 144 4.97e-30 111
MS.gene67220.t1 MTR_5g089200 44.872 78 42 1 13 90 151 227 7.38e-11 59.7
MS.gene67220.t1 MTR_6g028140 48.148 54 28 0 93 146 83 136 8.04e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67220.t1 AT3G03800 53.571 56 26 0 93 148 84 139 3.46e-14 68.6
MS.gene67220.t1 AT3G03800 53.571 56 26 0 93 148 84 139 3.46e-14 68.6
MS.gene67220.t1 AT5G08080 57.447 47 20 0 93 139 83 129 7.24e-13 64.3
MS.gene67220.t1 AT5G08080 57.447 47 20 0 93 139 83 129 7.24e-13 64.3
MS.gene67220.t1 AT5G08080 57.447 47 20 0 93 139 94 140 9.10e-13 64.7
MS.gene67220.t1 AT5G08080 57.447 47 20 0 93 139 83 129 9.11e-13 64.7
MS.gene67220.t1 AT5G08080 57.447 47 20 0 93 139 83 129 9.11e-13 64.7

Find 22 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGATCTTGACAGAGTTCC+AGG 0.316919 4.2:+12472216 MS.gene67220:CDS
TTAAGAAGCGCAAGTCTCTT+TGG 0.358710 4.2:+12471334 MS.gene67220:CDS
CGTCTATGTTTCTTAATCTC+AGG 0.392267 4.2:+12471237 MS.gene67220:CDS
TTACATAGAACATACCTTAT+GGG 0.397491 4.2:-12470711 None:intergenic
CATTCTTGCTCCGTCAATAC+CGG 0.466523 4.2:-12472078 None:intergenic
TTATGAAGAGGATTTGAAGC+AGG 0.468923 4.2:+12471072 MS.gene67220:CDS
TATGATAATTTCATCCCATA+AGG 0.480276 4.2:+12470697 None:intergenic
GAAAAGGATATTGATGAGGT+TGG 0.486934 4.2:+12471865 MS.gene67220:intron
TTGGTGCCTTAGCGATGGTA+AGG 0.495404 4.2:+12471353 MS.gene67220:CDS
CAAAAGCCTGGCTGTGAGAA+GGG 0.499127 4.2:+12472053 MS.gene67220:CDS
CCGGTTCCCTTCTCACAGCC+AGG 0.501105 4.2:-12472059 None:intergenic
CCTGGCTGTGAGAAGGGAAC+CGG 0.506291 4.2:+12472059 MS.gene67220:CDS
GAGAAGGGAACCGGTATTGA+CGG 0.524006 4.2:+12472068 MS.gene67220:CDS
CTTTGGTTCATGCAGCTGCT+CGG 0.524841 4.2:+12470875 MS.gene67220:CDS
CTAAACAATAGACAAAAGCC+TGG 0.535553 4.2:+12472041 MS.gene67220:CDS
ACAAAAGCCTGGCTGTGAGA+AGG 0.542434 4.2:+12472052 MS.gene67220:CDS
CAACATTGAAGATTATGAAG+AGG 0.549840 4.2:+12471060 MS.gene67220:CDS
TCTCTTTGGTGCCTTAGCGA+TGG 0.574751 4.2:+12471348 MS.gene67220:CDS
AGAGCTGCAATTAAGTTCAG+AGG 0.598621 4.2:+12471016 MS.gene67220:CDS
AATTAAGTTCAGAGGAGTCG+AGG 0.627825 4.2:+12471024 MS.gene67220:CDS
GATGGAAAAGGATATTGATG+AGG 0.655016 4.2:+12471861 MS.gene67220:intron
GGTTGGAAAGATTGCACATG+TGG 0.657598 4.2:+12471882 MS.gene67220:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAGCATATAATAAATTTT+TGG + chr4.2:12470967-12470986 MS.gene67220:intron 10.0%
!! AAAAATATTCTCAACATTAA+AGG - chr4.2:12470837-12470856 None:intergenic 15.0%
!! AAATTGAATGTAAAAATTGT+AGG + chr4.2:12470744-12470763 MS.gene67220:intron 15.0%
!! AATAATTGATTGAAAACTAT+AGG - chr4.2:12471149-12471168 None:intergenic 15.0%
!! AATTGAATGTAAAAATTGTA+GGG + chr4.2:12470745-12470764 MS.gene67220:intron 15.0%
!! ATTCAAGATACAAAAAAAAA+AGG - chr4.2:12471173-12471192 None:intergenic 15.0%
!! TGTTATATAGATTTCAAATA+TGG + chr4.2:12471980-12471999 MS.gene67220:intron 15.0%
!!! AAATTTCATTCATTCTTTTA+TGG + chr4.2:12470925-12470944 MS.gene67220:intron 15.0%
!!! TAATGTTGAGAATATTTTTT+CGG + chr4.2:12470838-12470857 MS.gene67220:intron 15.0%
!! ATGGATAAAAAATAGTTAAC+CGG + chr4.2:12471999-12472018 MS.gene67220:intron 20.0%
!!! AATGTTGAGAATATTTTTTC+GGG + chr4.2:12470839-12470858 MS.gene67220:intron 20.0%
!!! AATTTTAACTTCAATGTGAA+TGG + chr4.2:12471558-12471577 MS.gene67220:intron 20.0%
!!! TGTAATTGTTTTATGATGAA+TGG + chr4.2:12470783-12470802 MS.gene67220:intron 20.0%
! TGGATAAAAAATAGTTAACC+GGG + chr4.2:12472000-12472019 MS.gene67220:intron 25.0%
! TGTTGTGATTTAAATGAGTT+TGG + chr4.2:12471193-12471212 MS.gene67220:intron 25.0%
! TTACATAGAACATACCTTAT+GGG - chr4.2:12470714-12470733 None:intergenic 25.0%
! TTTACATAGAACATACCTTA+TGG - chr4.2:12470715-12470734 None:intergenic 25.0%
!! TAATGCTCATAAGATTTTAC+TGG + chr4.2:12471807-12471826 MS.gene67220:intron 25.0%
!! TCTGAAAATCAATTTGTTTC+AGG + chr4.2:12470806-12470825 MS.gene67220:intron 25.0%
!!! ATGTTGAGAATATTTTTTCG+GGG + chr4.2:12470840-12470859 MS.gene67220:intron 25.0%
!!! GAAAAACAACTTCTAGTTTT+AGG - chr4.2:12472259-12472278 None:intergenic 25.0%
AGTTCCTTGACTAAAAAGTT+CGG + chr4.2:12472195-12472214 MS.gene67220:intron 30.0%
AGTTTGGAGGAATTAATTTC+AGG + chr4.2:12471209-12471228 MS.gene67220:intron 30.0%
ATCATAACAATTGTCTTGGA+TGG + chr4.2:12471843-12471862 MS.gene67220:intron 30.0%
ATTCTGCATAAAACATATCC+CGG - chr4.2:12472021-12472040 None:intergenic 30.0%
CAACATTGAAGATTATGAAG+AGG + chr4.2:12471060-12471079 MS.gene67220:CDS 30.0%
CTGAATCATAACAATTGTCT+TGG + chr4.2:12471839-12471858 MS.gene67220:intron 30.0%
TATTCTCAACATTAAAGGAC+AGG - chr4.2:12470832-12470851 None:intergenic 30.0%
TGAGAAGATAGACATAAACT+TGG - chr4.2:12472281-12472300 None:intergenic 30.0%
TGTGATTTAAATGAGTTTGG+AGG + chr4.2:12471196-12471215 MS.gene67220:intron 30.0%
! AAGTTTTTCATGGCATACAA+AGG + chr4.2:12471273-12471292 MS.gene67220:CDS 30.0%
! TCATAAGATTTTACTGGTAC+TGG + chr4.2:12471813-12471832 MS.gene67220:intron 30.0%
!! TAGTTCTGATTATTGTGATC+TGG + chr4.2:12471438-12471457 MS.gene67220:intron 30.0%
!!! CAACTCTTTCAAGTTTTTCA+TGG + chr4.2:12471263-12471282 MS.gene67220:CDS 30.0%
!!! GGCATACAAAGGATTTTTTA+TGG + chr4.2:12471284-12471303 MS.gene67220:CDS 30.0%
!!! TGTTGAGAATATTTTTTCGG+GGG + chr4.2:12470841-12470860 MS.gene67220:intron 30.0%
AAAAAACCTTACCATCGCTA+AGG - chr4.2:12471362-12471381 None:intergenic 35.0%
ACAATTGTCTTGGATGGAAA+AGG + chr4.2:12471849-12471868 MS.gene67220:intron 35.0%
CCTTGTAACAATACCTTTCA+TGG - chr4.2:12471748-12471767 None:intergenic 35.0%
CGCATGGAGTATAAGAAAAT+TGG + chr4.2:12471656-12471675 MS.gene67220:intron 35.0%
CGTCTATGTTTCTTAATCTC+AGG + chr4.2:12471237-12471256 MS.gene67220:CDS 35.0%
CTAAACAATAGACAAAAGCC+TGG + chr4.2:12472041-12472060 MS.gene67220:CDS 35.0%
GAAAAGGATATTGATGAGGT+TGG + chr4.2:12471865-12471884 MS.gene67220:intron 35.0%
GATGGAAAAGGATATTGATG+AGG + chr4.2:12471861-12471880 MS.gene67220:intron 35.0%
GTTCCTTGACTAAAAAGTTC+GGG + chr4.2:12472196-12472215 MS.gene67220:intron 35.0%
TTCCTTGACTAAAAAGTTCG+GGG + chr4.2:12472197-12472216 MS.gene67220:CDS 35.0%
! ATAGCAATAGCAATTTTCGC+AGG + chr4.2:12471683-12471702 MS.gene67220:intron 35.0%
! ATTTGAAGCAGGTGAGTTAT+GGG + chr4.2:12471083-12471102 MS.gene67220:intron 35.0%
! CAAGTTTCAGTATTTTCGCA+TGG + chr4.2:12471640-12471659 MS.gene67220:intron 35.0%
! GGCAATGTCTGTAATTCTTT+TGG + chr4.2:12471766-12471785 MS.gene67220:intron 35.0%
! TTATGAAGAGGATTTGAAGC+AGG + chr4.2:12471072-12471091 MS.gene67220:CDS 35.0%
!! ACAAAAGCATTTGCCATGAA+AGG + chr4.2:12471732-12471751 MS.gene67220:intron 35.0%
!! CCATGAAAGGTATTGTTACA+AGG + chr4.2:12471745-12471764 MS.gene67220:intron 35.0%
AATTAAGTTCAGAGGAGTCG+AGG + chr4.2:12471024-12471043 MS.gene67220:CDS 40.0%
AGAGCTGCAATTAAGTTCAG+AGG + chr4.2:12471016-12471035 MS.gene67220:CDS 40.0%
GTCAAGGAACTGCAATTTCA+AGG - chr4.2:12472186-12472205 None:intergenic 40.0%
GTGTTTCAGAACAACATACC+TGG - chr4.2:12472237-12472256 None:intergenic 40.0%
! ATTTTCGCAGGAAGCTAATG+AGG + chr4.2:12471695-12471714 MS.gene67220:intron 40.0%
! GATTTGAAGCAGGTGAGTTA+TGG + chr4.2:12471082-12471101 MS.gene67220:intron 40.0%
! TTAAGAAGCGCAAGTCTCTT+TGG + chr4.2:12471334-12471353 MS.gene67220:CDS 40.0%
! TTTGAAGCAGGTGAGTTATG+GGG + chr4.2:12471084-12471103 MS.gene67220:intron 40.0%
!! ATCCCCGAACTTTTTAGTCA+AGG - chr4.2:12472202-12472221 None:intergenic 40.0%
CATTCTTGCTCCGTCAATAC+CGG - chr4.2:12472081-12472100 None:intergenic 45.0%
GGTTGGAAAGATTGCACATG+TGG + chr4.2:12471882-12471901 MS.gene67220:CDS 45.0%
ACAAAAGCCTGGCTGTGAGA+AGG + chr4.2:12472052-12472071 MS.gene67220:CDS 50.0%
CAAAAGCCTGGCTGTGAGAA+GGG + chr4.2:12472053-12472072 MS.gene67220:CDS 50.0%
CGGGGGTTATCAGTACTCTT+TGG + chr4.2:12470858-12470877 MS.gene67220:intron 50.0%
! CTTTGGTTCATGCAGCTGCT+CGG + chr4.2:12470875-12470894 MS.gene67220:CDS 50.0%
! GAGAAGGGAACCGGTATTGA+CGG + chr4.2:12472068-12472087 MS.gene67220:CDS 50.0%
! TTGGTGCCTTAGCGATGGTA+AGG + chr4.2:12471353-12471372 MS.gene67220:CDS 50.0%
!! TCTCTTTGGTGCCTTAGCGA+TGG + chr4.2:12471348-12471367 MS.gene67220:CDS 50.0%
GGGGATCTTGACAGAGTTCC+AGG + chr4.2:12472216-12472235 MS.gene67220:CDS 55.0%
CCTGGCTGTGAGAAGGGAAC+CGG + chr4.2:12472059-12472078 MS.gene67220:CDS 60.0%
CCGGTTCCCTTCTCACAGCC+AGG - chr4.2:12472062-12472081 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 12470698 12472343 12470698 ID=MS.gene67220
chr4.2 mRNA 12470698 12472343 12470698 ID=MS.gene67220.t1;Parent=MS.gene67220
chr4.2 exon 12470698 12470718 12470698 ID=MS.gene67220.t1.exon1;Parent=MS.gene67220.t1
chr4.2 CDS 12470698 12470718 12470698 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12470871 12470896 12470871 ID=MS.gene67220.t1.exon2;Parent=MS.gene67220.t1
chr4.2 CDS 12470871 12470896 12470871 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12471006 12471093 12471006 ID=MS.gene67220.t1.exon3;Parent=MS.gene67220.t1
chr4.2 CDS 12471006 12471093 12471006 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12471231 12471374 12471231 ID=MS.gene67220.t1.exon4;Parent=MS.gene67220.t1
chr4.2 CDS 12471231 12471374 12471231 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12471871 12471936 12471871 ID=MS.gene67220.t1.exon5;Parent=MS.gene67220.t1
chr4.2 CDS 12471871 12471936 12471871 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12472038 12472111 12472038 ID=MS.gene67220.t1.exon6;Parent=MS.gene67220.t1
chr4.2 CDS 12472038 12472111 12472038 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12472197 12472237 12472197 ID=MS.gene67220.t1.exon7;Parent=MS.gene67220.t1
chr4.2 CDS 12472197 12472237 12472197 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
chr4.2 exon 12472324 12472343 12472324 ID=MS.gene67220.t1.exon8;Parent=MS.gene67220.t1
chr4.2 CDS 12472324 12472343 12472324 ID=cds.MS.gene67220.t1;Parent=MS.gene67220.t1
Gene Sequence

>MS.gene67220

ATGATAATTTCATCCCATAAGGTATGTTCTATGTAAATTTATATTTAAATTGAATGTAAAAATTGTAGGGTTAAAATATTGATGTTGTAATTGTTTTATGATGAATGGTCTGAAAATCAATTTGTTTCAGGCCTGTCCTTTAATGTTGAGAATATTTTTTCGGGGGTTATCAGTACTCTTTGGTTCATGCAGCTGCTCGGTGAGTCATCATTAATTTAATTCATATAAAATTTCATTCATTCTTTTATGGTTAAAAATACATACATATATTTAGCATATAATAAATTTTTGGTGTTTTTTCTACTCAGTGCATATGATAGAGCTGCAATTAAGTTCAGAGGAGTCGAGGCAGATATAAATTTCAACATTGAAGATTATGAAGAGGATTTGAAGCAGGTGAGTTATGGGGAAGAATATGTTAAAAAAATGTTTATACTTTATATAATATCCTATAGTTTTCAATCAATTATTACCTTTTTTTTTTGTATCTTGAATTGTTGTGATTTAAATGAGTTTGGAGGAATTAATTTCAGGTAGTTCGTCTATGTTTCTTAATCTCAGGTATCAACTCTTTCAAGTTTTTCATGGCATACAAAGGATTTTTTATGGTCAACGATGAGCTTCTTTTGCAAGTATTTAAGAAGCGCAAGTCTCTTTGGTGCCTTAGCGATGGTAAGGTTTTTTTAGTTAAGCTTTTCATTTGAAACTGAATGATTGTTTGAGTTGATTTGTATAGTTCGTAGTTCTGATTATTGTGATCTGGACTGTATTGAAAGATATTTTAATTTGTTGATTAAGATGATGTGAGTTGTGTAGCTAAATCTGATGCATTATGATCATATTTTTTAGAAAAATCAATCAATTTTAACTTCAATGTGAATGGCAGTTAATTATGAAGAGACAAAAATAGTGTATGCATGTCAAATTTTGTGATGTTCAACTCAAGTTTCAGTATTTTCGCATGGAGTATAAGAAAATTGGATGTATAGCAATAGCAATTTTCGCAGGAAGCTAATGAGGAATCAAATGCTGTTACAAAAGCATTTGCCATGAAAGGTATTGTTACAAGGCAATGTCTGTAATTCTTTTGGTTGATACTTCAAATTGTTTAATGCTCATAAGATTTTACTGGTACTGGTTACTGAATCATAACAATTGTCTTGGATGGAAAAGGATATTGATGAGGTTGGAAAGATTGCACATGTGGTCAAAGCAAAAATTGAAGCTATCAACAGAAAAGTAATGTGATGCTAGCTGAATATTGTTTTAGCATATTTCAGTTTGTTATATAGATTTCAAATATGGATAAAAAATAGTTAACCGGGATATGTTTTATGCAGAATCTAAACAATAGACAAAAGCCTGGCTGTGAGAAGGGAACCGGTATTGACGGAGCAAGAATGAATATGACAAAGTAAATATATAGTGTATGTGTTTATTAGCATACTTGATAAAAACAATTTAAGAAGCTAAATATCTACTTTTCCTTGAAATTGCAGTTCCTTGACTAAAAAGTTCGGGGATCTTGACAGAGTTCCAGGTATGTTGTTCTGAAACACCTAAAACTAGAAGTTGTTTTTCCAAGTTTATGTCTATCTTCTCATCAACGTGTATGTTATGTTGCAGAGACAAAGAATACAAGATGA

Protein sequence

>MS.gene67220.t1

MIISSHKYSLVHAAARAYDRAAIKFRGVEADINFNIEDYEEDLKQVVRLCFLISGINSFKFFMAYKGFFMVNDELLLQVFKKRKSLWCLSDGKDIDEVGKIAHVVKAKIEAINRKNLNNRQKPGCEKGTGIDGARMNMTNSLTKKFGDLDRVPETKNTR