AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene21838

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21838.t1 MTR_5g006400 93.103 174 8 2 1 173 1 171 8.69e-116 325
MS.gene21838.t1 MTR_1g103570 60.843 166 57 3 10 173 8 167 5.18e-57 176
MS.gene21838.t1 MTR_1g071920 42.553 141 68 3 21 148 9 149 2.28e-27 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21838.t1 AT3G22530 59.322 118 43 2 41 153 59 176 3.71e-40 135
MS.gene21838.t1 AT4G14830 63.793 116 38 3 41 152 28 143 1.82e-39 131

Find 41 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCTGGAGGTTTCGTTTGC+CGG 0.284682 5.2:-1183841 MS.gene21838:CDS
TCTTAGTTTGTTGTTGTTGT+TGG 0.335493 5.2:+1184085 None:intergenic
ATGATCTTCATCCTGATATC+TGG 0.364083 5.2:-1183857 MS.gene21838:CDS
AAACGAAACCTCCAGATATC+AGG 0.375554 5.2:+1183846 None:intergenic
ACCTACCTGTTTCCGATTTG+TGG 0.379340 5.2:-1183988 MS.gene21838:CDS
GAAACACTCTTGTCTGTGTC+TGG 0.410833 5.2:-1184113 MS.gene21838:CDS
TTTGCCGGAATCTGTTGTTC+CGG 0.426638 5.2:-1183826 MS.gene21838:CDS
CTCCGCCACAAATCGGAAAC+AGG 0.434356 5.2:+1183983 None:intergenic
GAACCTATTGGTGGTGGTGG+TGG 0.445152 5.2:-1183726 MS.gene21838:CDS
AGCTCCGGAACAACAGATTC+CGG 0.463331 5.2:+1183822 None:intergenic
GAGACCATTCCTGAACCTAT+TGG 0.472661 5.2:-1183738 MS.gene21838:CDS
GTCTCCCTCACGTGTTCAGC+AGG 0.474728 5.2:-1184061 MS.gene21838:CDS
GTGTCACTAAGATTGTTGTA+AGG 0.490134 5.2:-1183908 MS.gene21838:CDS
CCACCACCACCAATAGGTTC+AGG 0.502881 5.2:+1183729 None:intergenic
AGTCTGTCTCCGCCACAAAT+CGG 0.514073 5.2:+1183976 None:intergenic
CCGACCGTAACGGAAGTTGC+AGG 0.515766 5.2:+1184036 None:intergenic
ACTCATCGTCACCGTGCCTA+AGG 0.516775 5.2:-1183772 MS.gene21838:CDS
CCTGAACCTATTGGTGGTGG+TGG 0.519897 5.2:-1183729 MS.gene21838:CDS
AACACAGCAGTAGCGAGCTC+CGG 0.534860 5.2:+1183807 None:intergenic
AGTGTTTCTGCTTGAGACAG+TGG 0.538516 5.2:+1184128 None:intergenic
GCTACTGCTGTGTTTGTCGA+TGG 0.552059 5.2:-1183798 MS.gene21838:CDS
CACACGCTTCATATCCATCC+AGG 0.559660 5.2:-1183930 MS.gene21838:CDS
GGATCCTGCAACTTCCGTTA+CGG 0.563547 5.2:-1184040 MS.gene21838:CDS
TGTCACTAAGATTGTTGTAA+GGG 0.575511 5.2:-1183907 MS.gene21838:CDS
ATCTTCATCCTGATATCTGG+AGG 0.587374 5.2:-1183854 MS.gene21838:CDS
CAATCTTAGTGACACCTGGA+TGG 0.590009 5.2:+1183916 None:intergenic
GGATGCTGACGTGTCAGTTG+AGG 0.599188 5.2:-1184015 MS.gene21838:CDS
ATTCCTGAACCTATTGGTGG+TGG 0.599552 5.2:-1183732 MS.gene21838:CDS
AGACTCATCACTCGGACATG+TGG 0.604383 5.2:-1183958 MS.gene21838:CDS
ACAACAATCTTAGTGACACC+TGG 0.610797 5.2:+1183912 None:intergenic
GTCTCATCGTCACAAGCCTT+AGG 0.613900 5.2:+1183756 None:intergenic
ACCATTCCTGAACCTATTGG+TGG 0.619569 5.2:-1183735 MS.gene21838:CDS
AGGATCCTGCTGAACACGTG+AGG 0.619719 5.2:+1184056 None:intergenic
TACCTGTTTCCGATTTGTGG+CGG 0.624557 5.2:-1183985 MS.gene21838:CDS
GGATCCTGCTGAACACGTGA+GGG 0.626553 5.2:+1184057 None:intergenic
CCTGCAACTTCCGTTACGGT+CGG 0.629666 5.2:-1184036 MS.gene21838:CDS
ACGTCAGCATCCGACCGTAA+CGG 0.641337 5.2:+1184026 None:intergenic
ACCACCAATAGGTTCAGGAA+TGG 0.647164 5.2:+1183734 None:intergenic
ATCGTCACAAGCCTTAGGCA+CGG 0.656268 5.2:+1183761 None:intergenic
GCGGAGACAGACTCATCACT+CGG 0.660251 5.2:-1183966 MS.gene21838:CDS
GCCACAAATCGGAAACAGGT+AGG 0.667827 5.2:+1183987 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGCAATGAGTTGCAAAAAA+TGG - chr5.2:1183708-1183727 MS.gene21838:CDS 30.0%
TGTCACTAAGATTGTTGTAA+GGG - chr5.2:1183982-1184001 MS.gene21838:CDS 30.0%
!! TCTTAGTTTGTTGTTGTTGT+TGG + chr5.2:1183807-1183826 None:intergenic 30.0%
ATGATCTTCATCCTGATATC+TGG - chr5.2:1184032-1184051 MS.gene21838:CDS 35.0%
! GTGTCACTAAGATTGTTGTA+AGG - chr5.2:1183981-1184000 MS.gene21838:CDS 35.0%
!! TCACTCACTTCACTTTTCTT+TGG - chr5.2:1184009-1184028 MS.gene21838:CDS 35.0%
AAACGAAACCTCCAGATATC+AGG + chr5.2:1184046-1184065 None:intergenic 40.0%
ACAACAATCTTAGTGACACC+TGG + chr5.2:1183980-1183999 None:intergenic 40.0%
ATCTTCATCCTGATATCTGG+AGG - chr5.2:1184035-1184054 MS.gene21838:CDS 40.0%
ACCACCAATAGGTTCAGGAA+TGG + chr5.2:1184158-1184177 None:intergenic 45.0%
ACCATTCCTGAACCTATTGG+TGG - chr5.2:1184154-1184173 MS.gene21838:CDS 45.0%
ATTCCTGAACCTATTGGTGG+TGG - chr5.2:1184157-1184176 MS.gene21838:CDS 45.0%
CAATCTTAGTGACACCTGGA+TGG + chr5.2:1183976-1183995 None:intergenic 45.0%
GAAACACTCTTGTCTGTGTC+TGG - chr5.2:1183776-1183795 MS.gene21838:CDS 45.0%
GAGACCATTCCTGAACCTAT+TGG - chr5.2:1184151-1184170 MS.gene21838:CDS 45.0%
TATCTGGAGGTTTCGTTTGC+CGG - chr5.2:1184048-1184067 MS.gene21838:CDS 45.0%
TTTGCCGGAATCTGTTGTTC+CGG - chr5.2:1184063-1184082 MS.gene21838:CDS 45.0%
! ACCTACCTGTTTCCGATTTG+TGG - chr5.2:1183901-1183920 MS.gene21838:CDS 45.0%
! AGTGTTTCTGCTTGAGACAG+TGG + chr5.2:1183764-1183783 None:intergenic 45.0%
! TACCTGTTTCCGATTTGTGG+CGG - chr5.2:1183904-1183923 MS.gene21838:CDS 45.0%
AGACTCATCACTCGGACATG+TGG - chr5.2:1183931-1183950 MS.gene21838:CDS 50.0%
AGCTCCGGAACAACAGATTC+CGG + chr5.2:1184070-1184089 None:intergenic 50.0%
AGTCTGTCTCCGCCACAAAT+CGG + chr5.2:1183916-1183935 None:intergenic 50.0%
ATCGTCACAAGCCTTAGGCA+CGG + chr5.2:1184131-1184150 None:intergenic 50.0%
CACACGCTTCATATCCATCC+AGG - chr5.2:1183959-1183978 MS.gene21838:CDS 50.0%
GCCACAAATCGGAAACAGGT+AGG + chr5.2:1183905-1183924 None:intergenic 50.0%
GCTACTGCTGTGTTTGTCGA+TGG - chr5.2:1184091-1184110 MS.gene21838:CDS 50.0%
GGATCCTGCAACTTCCGTTA+CGG - chr5.2:1183849-1183868 MS.gene21838:CDS 50.0%
GTCTCATCGTCACAAGCCTT+AGG + chr5.2:1184136-1184155 None:intergenic 50.0%
AACACAGCAGTAGCGAGCTC+CGG + chr5.2:1184085-1184104 None:intergenic 55.0%
ACGTCAGCATCCGACCGTAA+CGG + chr5.2:1183866-1183885 None:intergenic 55.0%
ACTCATCGTCACCGTGCCTA+AGG - chr5.2:1184117-1184136 MS.gene21838:CDS 55.0%
AGGATCCTGCTGAACACGTG+AGG + chr5.2:1183836-1183855 None:intergenic 55.0%
CCACCACCACCAATAGGTTC+AGG + chr5.2:1184163-1184182 None:intergenic 55.0%
CCTGCAACTTCCGTTACGGT+CGG - chr5.2:1183853-1183872 MS.gene21838:CDS 55.0%
CTCCGCCACAAATCGGAAAC+AGG + chr5.2:1183909-1183928 None:intergenic 55.0%
GCGGAGACAGACTCATCACT+CGG - chr5.2:1183923-1183942 MS.gene21838:CDS 55.0%
GGATCCTGCTGAACACGTGA+GGG + chr5.2:1183835-1183854 None:intergenic 55.0%
GGATGCTGACGTGTCAGTTG+AGG - chr5.2:1183874-1183893 MS.gene21838:CDS 55.0%
!! CCTGAACCTATTGGTGGTGG+TGG - chr5.2:1184160-1184179 MS.gene21838:CDS 55.0%
!! GAACCTATTGGTGGTGGTGG+TGG - chr5.2:1184163-1184182 MS.gene21838:CDS 55.0%
CCACCACCACCACCACCAAT+AGG + chr5.2:1184169-1184188 None:intergenic 60.0%
GTCTCCCTCACGTGTTCAGC+AGG - chr5.2:1183828-1183847 MS.gene21838:CDS 60.0%
! CCGACCGTAACGGAAGTTGC+AGG + chr5.2:1183856-1183875 None:intergenic 60.0%
!! ATTGGTGGTGGTGGTGGTGG+TGG - chr5.2:1184169-1184188 MS.gene21838:CDS 60.0%
!! CCTATTGGTGGTGGTGGTGG+TGG - chr5.2:1184166-1184185 MS.gene21838:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 1183695 1184216 1183695 ID=MS.gene21838
chr5.2 mRNA 1183695 1184216 1183695 ID=MS.gene21838.t1;Parent=MS.gene21838
chr5.2 exon 1183695 1184216 1183695 ID=MS.gene21838.t1.exon1;Parent=MS.gene21838.t1
chr5.2 CDS 1183695 1184216 1183695 ID=cds.MS.gene21838.t1;Parent=MS.gene21838.t1
Gene Sequence

>MS.gene21838

ATGGATTCTGTTGAAGCAATGAGTTGCAAAAAATGGAACATAAGCATAGCATACAACATGATGAATCCACTGTCTCAAGCAGAAACACTCTTGTCTGTGTCTGGTTTCTCCAACAACAACAACAAACTAAGACGTCTCCCTCACGTGTTCAGCAGGATCCTGCAACTTCCGTTACGGTCGGATGCTGACGTGTCAGTTGAGGAAGAACCTACCTGTTTCCGATTTGTGGCGGAGACAGACTCATCACTCGGACATGTGGAGACTCACACGCTTCATATCCATCCAGGTGTCACTAAGATTGTTGTAAGGGCAAGTCACTCACTTCACTTTTCTTTGGATGATCTTCATCCTGATATCTGGAGGTTTCGTTTGCCGGAATCTGTTGTTCCGGAGCTCGCTACTGCTGTGTTTGTCGATGGTGAACTCATCGTCACCGTGCCTAAGGCTTGTGACGATGAGACCATTCCTGAACCTATTGGTGGTGGTGGTGGTGGTGGTGCTACACTAGTGTTTGTTCAGTGA
Protein sequence

>MS.gene21838.t1

MDSVEAMSCKKWNISIAYNMMNPLSQAETLLSVSGFSNNNNKLRRLPHVFSRILQLPLRSDADVSVEEEPTCFRFVAETDSSLGHVETHTLHIHPGVTKIVVRASHSLHFSLDDLHPDIWRFRLPESVVPELATAVFVDGELIVTVPKACDDETIPEPIGGGGGGGATLVFVQ