AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00764

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00764.t1 MTR_2g024380 81.132 106 20 0 1 106 165 270 4.44e-57 187
MS.gene00764.t1 MTR_8g067635 39.706 136 51 2 1 106 234 368 6.26e-23 95.5
MS.gene00764.t1 MTR_8g069935 40.458 131 48 1 6 106 220 350 1.44e-22 94.4
MS.gene00764.t1 MTR_8g067650 42.537 134 46 3 3 106 226 358 8.02e-22 92.4
MS.gene00764.t1 MTR_7g105000 40.876 137 52 2 2 110 208 343 2.16e-21 90.1
MS.gene00764.t1 MTR_6g053200 37.607 117 58 4 5 106 233 349 1.09e-11 63.2
MS.gene00764.t1 MTR_1g099600 62.791 43 15 1 64 106 163 204 3.24e-11 61.2
MS.gene00764.t1 MTR_2g024350 88.889 27 3 0 80 106 1 27 5.69e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 47 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTATAATAGTTCCATTTC+CGG 0.183585 2.3:+64433049 None:intergenic
ATAAATCCAGTTTCAGAATA+AGG 0.301581 2.3:+64432893 None:intergenic
TATGGACAGAAACCCATTAA+AGG 0.301677 2.3:-64433789 MS.gene00764:CDS
GGATGTGGAGGCCCTTTAAT+GGG 0.317040 2.3:+64433777 None:intergenic
TGGATGTGGAGGCCCTTTAA+TGG 0.317688 2.3:+64433776 None:intergenic
TTCACATAACAACAAGATTA+TGG 0.327717 2.3:-64432972 MS.gene00764:CDS
AACTTGCCTTATTCTGAAAC+TGG 0.331215 2.3:-64432899 MS.gene00764:CDS
ATCAATGCATGCAACAGGTT+TGG 0.338091 2.3:+64434090 None:intergenic
CACTAAGCAAATCGAGAAAA+AGG 0.340079 2.3:-64434021 MS.gene00764:intron
ATAGTTCCATTTCCGGATAA+GGG 0.344415 2.3:+64433056 None:intergenic
TCGTGGGCATGGAGGAAATA+TGG 0.346010 2.3:-64433807 MS.gene00764:CDS
AATAGTTCCATTTCCGGATA+AGG 0.348085 2.3:+64433055 None:intergenic
GAGTGTTAGGAAATTAAAAT+TGG 0.348469 2.3:+64434162 None:intergenic
TCAATGCATGCAACAGGTTT+GGG 0.360204 2.3:+64434091 None:intergenic
GTTGTTGTTCCGCGAGTGTT+AGG 0.379748 2.3:+64434149 None:intergenic
AAACATCCCTTATCCGGAAA+TGG 0.403232 2.3:-64433062 MS.gene00764:CDS
ATCCACAAATGTTAGAAACT+TGG 0.408052 2.3:-64432996 MS.gene00764:CDS
GTGATATCAATGCATGCAAC+AGG 0.433021 2.3:+64434085 None:intergenic
GACCCAGCTTCTTCGACAAC+GGG 0.441727 2.3:+64433019 None:intergenic
ACCCAAGTTTCTAACATTTG+TGG 0.449992 2.3:+64432994 None:intergenic
ATGGACAGAAACCCATTAAA+GGG 0.452136 2.3:-64433788 MS.gene00764:CDS
TCAATCAAACATCCCTTATC+CGG 0.460461 2.3:-64433068 MS.gene00764:CDS
TATAGCACACCAATGCCGTT+TGG 0.476487 2.3:+64433856 None:intergenic
TCCACAAATGTTAGAAACTT+GGG 0.479230 2.3:-64432995 MS.gene00764:CDS
TTACCCGTTGTCGAAGAAGC+TGG 0.488577 2.3:-64433022 MS.gene00764:CDS
GTTAGGAAATTAAAATTGGT+GGG 0.494516 2.3:+64434166 None:intergenic
AGCAATGCTCAAGTTGTTGT+CGG 0.499521 2.3:-64432929 MS.gene00764:CDS
ACATGGGCATTGCTGCTCTC+CGG 0.506612 2.3:+64433100 None:intergenic
TTGATTGATCAACGAGAACA+TGG 0.516364 2.3:+64433083 None:intergenic
ACATAATAACCAAACGGCAT+TGG 0.525701 2.3:-64433865 MS.gene00764:CDS
TGTTAGGAAATTAAAATTGG+TGG 0.530065 2.3:+64434165 None:intergenic
GATGTTGTAGTTTGATCATC+CGG 0.546610 2.3:-64433119 MS.gene00764:intron
CAGAAAACATAATAACCAAA+CGG 0.550138 2.3:-64433871 MS.gene00764:CDS
TACCCGTTGTCGAAGAAGCT+GGG 0.554513 2.3:-64433021 MS.gene00764:CDS
TGACCCAGCTTCTTCGACAA+CGG 0.566165 2.3:+64433018 None:intergenic
TTTCAAAAGACTCGTGGGCA+TGG 0.568404 2.3:-64433818 MS.gene00764:CDS
TTAGGAAATTAAAATTGGTG+GGG 0.575907 2.3:+64434167 None:intergenic
ATGTGTGTGAACCTTGGATG+TGG 0.606429 2.3:+64433762 None:intergenic
GATTTGCTTAGTGCAACTGA+TGG 0.610064 2.3:+64434031 None:intergenic
ATGAACACTAGTGTTTGTCA+TGG 0.612356 2.3:+64434204 None:intergenic
TTAAAGGGCCTCCACATCCA+AGG 0.615060 2.3:-64433773 MS.gene00764:intron
TGAGCTTTCAAAAGACTCGT+GGG 0.628685 2.3:-64433823 MS.gene00764:CDS
ATGAGCTTTCAAAAGACTCG+TGG 0.638619 2.3:-64433824 MS.gene00764:CDS
TGTGTGAACCTTGGATGTGG+AGG 0.659965 2.3:+64433765 None:intergenic
CAAAAGACTCGTGGGCATGG+AGG 0.669284 2.3:-64433815 MS.gene00764:CDS
TGATTGATCAACGAGAACAT+GGG 0.680853 2.3:+64433084 None:intergenic
ACTTGAGCATTGCTACTCTG+TGG 0.710623 2.3:+64432938 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAAATATATAAAATAAT+AGG + chr2.3:64433081-64433100 None:intergenic 0.0%
!! GATTAAAAAAGTTATTTATT+AGG + chr2.3:64433647-64433666 None:intergenic 10.0%
!! TTAAAAAAGTTATTTATTAG+GGG + chr2.3:64433645-64433664 None:intergenic 10.0%
!! TTCTAATTAAATTCAACATA+TGG - chr2.3:64433461-64433480 MS.gene00764:intron 15.0%
!! TTTAATAAGAATGTTGTTAT+TGG - chr2.3:64433884-64433903 MS.gene00764:intron 15.0%
!! ACAACATTCTTATTAAATGT+TGG + chr2.3:64433881-64433900 None:intergenic 20.0%
!! ACTTATATTGTGATATATGA+AGG - chr2.3:64433836-64433855 MS.gene00764:CDS 20.0%
!! TAGAATTATATGCAATGAAT+AGG + chr2.3:64433446-64433465 None:intergenic 20.0%
!!! TGTTTTCTGTAAGAAAAAAA+AGG + chr2.3:64433181-64433200 None:intergenic 20.0%
! AACATATGGTATCTTAATCA+CGG - chr2.3:64433475-64433494 MS.gene00764:intron 25.0%
! ATAAATCCAGTTTCAGAATA+AGG + chr2.3:64434173-64434192 None:intergenic 25.0%
! CAGAAAACATAATAACCAAA+CGG - chr2.3:64433192-64433211 MS.gene00764:intron 25.0%
! GAGTGTTAGGAAATTAAAAT+TGG + chr2.3:64432904-64432923 None:intergenic 25.0%
! GTTAGGAAATTAAAATTGGT+GGG + chr2.3:64432900-64432919 None:intergenic 25.0%
! TAGAGGAAGTAAAAACATAT+TGG + chr2.3:64433599-64433618 None:intergenic 25.0%
! TATTCTTACGTAACTTAACT+CGG - chr2.3:64433136-64433155 MS.gene00764:intron 25.0%
! TGTTAGGAAATTAAAATTGG+TGG + chr2.3:64432901-64432920 None:intergenic 25.0%
! TTAGGAAATTAAAATTGGTG+GGG + chr2.3:64432899-64432918 None:intergenic 25.0%
! TTCACATAACAACAAGATTA+TGG - chr2.3:64434091-64434110 MS.gene00764:CDS 25.0%
!! AAATTTGTTTATGCTGAAAC+TGG - chr2.3:64433694-64433713 MS.gene00764:intron 25.0%
!! AATCAATGTTTAAAACTCGA+GGG + chr2.3:64433409-64433428 None:intergenic 25.0%
!!! GAGTTTTAAACATTGATTGT+AGG - chr2.3:64433411-64433430 MS.gene00764:intron 25.0%
ATCCACAAATGTTAGAAACT+TGG - chr2.3:64434067-64434086 MS.gene00764:CDS 30.0%
CTATTACAAATGTAGCACTT+TGG - chr2.3:64433763-64433782 MS.gene00764:intron 30.0%
CTCTATAATAGTTCCATTTC+CGG + chr2.3:64434017-64434036 None:intergenic 30.0%
GTATGCATGATAAAAATGAG+CGG + chr2.3:64433006-64433025 None:intergenic 30.0%
TAGGGGCTTAAAGAAAAATA+TGG + chr2.3:64433628-64433647 None:intergenic 30.0%
TCCACAAATGTTAGAAACTT+GGG - chr2.3:64434068-64434087 MS.gene00764:CDS 30.0%
TCTTTAATAAATGATGCTGC+AGG - chr2.3:64433738-64433757 MS.gene00764:intron 30.0%
! AAACATTGATTGTAGGCATT+GGG - chr2.3:64433418-64433437 MS.gene00764:intron 30.0%
! AAATTTAGGTTTGCCTAATG+TGG - chr2.3:64433920-64433939 MS.gene00764:intron 30.0%
! CAATCAATGTTTAAAACTCG+AGG + chr2.3:64433410-64433429 None:intergenic 30.0%
! TAAACATTGATTGTAGGCAT+TGG - chr2.3:64433417-64433436 MS.gene00764:intron 30.0%
! TCAGCATAAACAAATTTTGC+AGG + chr2.3:64433691-64433710 None:intergenic 30.0%
!!! TTTTAATTTCCTAACACTCG+CGG - chr2.3:64432905-64432924 MS.gene00764:CDS 30.0%
AACTACAACATCACCACATT+AGG + chr2.3:64433936-64433955 None:intergenic 35.0%
AATAGTTCCATTTCCGGATA+AGG + chr2.3:64434011-64434030 None:intergenic 35.0%
ACATAATAACCAAACGGCAT+TGG - chr2.3:64433198-64433217 MS.gene00764:intron 35.0%
ACCCAAGTTTCTAACATTTG+TGG + chr2.3:64434072-64434091 None:intergenic 35.0%
AGGCAAACCTAAATTTGTGA+TGG + chr2.3:64433916-64433935 None:intergenic 35.0%
ATAGTTCCATTTCCGGATAA+GGG + chr2.3:64434010-64434029 None:intergenic 35.0%
ATGGACAGAAACCCATTAAA+GGG - chr2.3:64433275-64433294 MS.gene00764:intron 35.0%
CACTAAGCAAATCGAGAAAA+AGG - chr2.3:64433042-64433061 MS.gene00764:CDS 35.0%
GAAAAATATGGCACACTTAG+AGG + chr2.3:64433616-64433635 None:intergenic 35.0%
GATGTTGTAGTTTGATCATC+CGG - chr2.3:64433944-64433963 MS.gene00764:intron 35.0%
GGCAAACCTAAATTTGTGAT+GGG + chr2.3:64433915-64433934 None:intergenic 35.0%
TATGGACAGAAACCCATTAA+AGG - chr2.3:64433274-64433293 MS.gene00764:intron 35.0%
TCAATCAAACATCCCTTATC+CGG - chr2.3:64433995-64434014 MS.gene00764:intron 35.0%
TGATTGATCAACGAGAACAT+GGG + chr2.3:64433982-64434001 None:intergenic 35.0%
TTGATTGATCAACGAGAACA+TGG + chr2.3:64433983-64434002 None:intergenic 35.0%
TTTAAATGTGCAGCTCATTG+TGG + chr2.3:64433551-64433570 None:intergenic 35.0%
! AAACCTAAATTTGTGATGGG+AGG + chr2.3:64433912-64433931 None:intergenic 35.0%
! TTTTCTACCTTTCTTCTTGC+TGG + chr2.3:64433797-64433816 None:intergenic 35.0%
! TTTTGAATGTGTGTGAACCT+TGG + chr2.3:64433310-64433329 None:intergenic 35.0%
!! AACTTGCCTTATTCTGAAAC+TGG - chr2.3:64434164-64434183 MS.gene00764:CDS 35.0%
AAACATCCCTTATCCGGAAA+TGG - chr2.3:64434001-64434020 MS.gene00764:intron 40.0%
AGATTGTCCAGCAAGAAGAA+AGG - chr2.3:64433787-64433806 MS.gene00764:CDS 40.0%
ATCAATGCATGCAACAGGTT+TGG + chr2.3:64432976-64432995 None:intergenic 40.0%
ATGAGCTTTCAAAAGACTCG+TGG - chr2.3:64433239-64433258 MS.gene00764:intron 40.0%
GCTCATTGTGGATAATTGAG+TGG + chr2.3:64433539-64433558 None:intergenic 40.0%
GTACCTCCCATCACAAATTT+AGG - chr2.3:64433906-64433925 MS.gene00764:intron 40.0%
GTGATATCAATGCATGCAAC+AGG + chr2.3:64432981-64433000 None:intergenic 40.0%
TCAATGCATGCAACAGGTTT+GGG + chr2.3:64432975-64432994 None:intergenic 40.0%
TGAGCTTTCAAAAGACTCGT+GGG - chr2.3:64433240-64433259 MS.gene00764:intron 40.0%
! AGCAATGCTCAAGTTGTTGT+CGG - chr2.3:64434134-64434153 MS.gene00764:CDS 40.0%
! ATGTTTAAAACTCGAGGGTG+CGG + chr2.3:64433404-64433423 None:intergenic 40.0%
! GATTTGCTTAGTGCAACTGA+TGG + chr2.3:64433035-64433054 None:intergenic 40.0%
ATGTGTGTGAACCTTGGATG+TGG + chr2.3:64433304-64433323 None:intergenic 45.0%
TATAGCACACCAATGCCGTT+TGG + chr2.3:64433210-64433229 None:intergenic 45.0%
TTTCAAAAGACTCGTGGGCA+TGG - chr2.3:64433245-64433264 MS.gene00764:intron 45.0%
! ACTTGAGCATTGCTACTCTG+TGG + chr2.3:64434128-64434147 None:intergenic 45.0%
!! AGGGTGCGGTTGTTTGTTTT+AGG + chr2.3:64433390-64433409 None:intergenic 45.0%
!! AAATAATATCAATTTATTAT+TGG - chr2.3:64433571-64433590 MS.gene00764:intron 5.0%
!! ATTAAAAAAGTTATTTATTA+GGG + chr2.3:64433646-64433665 None:intergenic 5.0%
GGATGTGGAGGCCCTTTAAT+GGG + chr2.3:64433289-64433308 None:intergenic 50.0%
TACCCGTTGTCGAAGAAGCT+GGG - chr2.3:64434042-64434061 MS.gene00764:CDS 50.0%
TCGTGGGCATGGAGGAAATA+TGG - chr2.3:64433256-64433275 MS.gene00764:intron 50.0%
TGACCCAGCTTCTTCGACAA+CGG + chr2.3:64434048-64434067 None:intergenic 50.0%
TGGATGTGGAGGCCCTTTAA+TGG + chr2.3:64433290-64433309 None:intergenic 50.0%
TGTGTGAACCTTGGATGTGG+AGG + chr2.3:64433301-64433320 None:intergenic 50.0%
TTAAAGGGCCTCCACATCCA+AGG - chr2.3:64433290-64433309 MS.gene00764:intron 50.0%
TTACCCGTTGTCGAAGAAGC+TGG - chr2.3:64434041-64434060 MS.gene00764:CDS 50.0%
! GTTGTTGTTCCGCGAGTGTT+AGG + chr2.3:64432917-64432936 None:intergenic 50.0%
CAAAAGACTCGTGGGCATGG+AGG - chr2.3:64433248-64433267 MS.gene00764:intron 55.0%
GACCCAGCTTCTTCGACAAC+GGG + chr2.3:64434047-64434066 None:intergenic 55.0%
! ACATGGGCATTGCTGCTCTC+CGG + chr2.3:64433966-64433985 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 64432861 64434224 64432861 ID=MS.gene00764
chr2.3 mRNA 64432861 64434224 64432861 ID=MS.gene00764.t1;Parent=MS.gene00764
chr2.3 exon 64434022 64434224 64434022 ID=MS.gene00764.t1.exon1;Parent=MS.gene00764.t1
chr2.3 CDS 64434022 64434224 64434022 ID=cds.MS.gene00764.t1;Parent=MS.gene00764.t1
chr2.3 exon 64433774 64433890 64433774 ID=MS.gene00764.t1.exon2;Parent=MS.gene00764.t1
chr2.3 CDS 64433774 64433890 64433774 ID=cds.MS.gene00764.t1;Parent=MS.gene00764.t1
chr2.3 exon 64432861 64433131 64432861 ID=MS.gene00764.t1.exon3;Parent=MS.gene00764.t1
chr2.3 CDS 64432861 64433131 64432861 ID=cds.MS.gene00764.t1;Parent=MS.gene00764.t1
Gene Sequence

>MS.gene00764

ATGACAAACACTAGTGTTCATGAAATCAATCAATACCCCACCAATTTTAATTTCCTAACACTCGCGGAACAACAACTGATTCAACAAAACATCAACAATCAAGTGTCTGTTCCCAAACCTGTTGCATGCATTGATATCACAACCGCTCATTTTTATCATGCATACAAACATCCATCAGTTGCACTAAGCAAATCGAGAAAAAGGTAAAGTATTTATTCCTATTATTTTATATATTTTAATTATAAATCAATTTTATCATGTCAAAATATTGAAAATATTCTTACGTAACTTAACTCGGTTGAACTAAAATCATTTTACCTTTTTTTTCTTACAGAAAACATAATAACCAAACGGCATTGGTGTGCTATATGAGAGAAGATGAGCTTTCAAAAGACTCGTGGGCATGGAGGAAATATGGACAGAAACCCATTAAAGGGCCTCCACATCCAAGGTTCACACACATTCAAAACTCTATCTTTAACATATTTCTCATTTCTTTCACATTAAAAACAATATAGTTTTGTTACCTAAAACAAACAACCGCACCCTCGAGTTTTAAACATTGATTGTAGGCATTGGGATCCTATTCATTGCATATAATTCTAATTAAATTCAACATATGGTATCTTAATCACGGCTGCGTTTGTGTTTCAAATTTGAAAACATCAAACATTGCCACTCAATTATCCACAATGAGCTGCACATTTAAAAAATAATATCAATTTATTATTGGTTCCAATATGTTTTTACTTCCTCTAAGTGTGCCATATTTTTCTTTAAGCCCCTAATAAATAACTTTTTTAATCATCGCAAATATTGTTGTAGCTCCTGCAAAATTTGTTTATGCTGAAACTGGTCTATGAATTATTATTTTTATTCTTTAATAAATGATGCTGCAGGAGCTATTACAAATGTAGCACTTTGGCAGATTGTCCAGCAAGAAGAAAGGTAGAAAAAAGCAAAACTCAAGAGAAGACTTATATTGTGATATATGAAGGAGAGCACAAACACGCAAAACCAACATTTAATAAGAATGTTGTTATTGGTACCTCCCATCACAAATTTAGGTTTGCCTAATGTGGTGATGTTGTAGTTTGATCATCCGGAGAGCAGCAATGCCCATGTTCTCGTTGATCAATCAAACATCCCTTATCCGGAAATGGAACTATTATAGAGTCAATTACCCGTTGTCGAAGAAGCTGGGTCATCCACAAATGTTAGAAACTTGGGTTCACATAACAACAAGATTATGGAGTTTGATGAGCCACAGAGTAGCAATGCTCAAGTTGTTGTCGGTGACTCAAACTTGCCTTATTCTGAAACTGGATTTATTAGAAGCTTTGATGATGATGACAATATTTTGA
Protein sequence

>MS.gene00764.t1

MTNTSVHEINQYPTNFNFLTLAEQQLIQQNINNQVSVPKPVACIDITTAHFYHAYKHPSVALSKSRKRKHNNQTALVCYMREDELSKDSWAWRKYGQKPIKGPPHPSLIIRRAAMPMFSLINQTSLIRKWNYYRVNYPLSKKLGHPQMLETWVHITTRLWSLMSHRVAMLKLLSVTQTCLILKLDLLEALMMMTIF