AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05188


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05188.t1 MTR_6g478160 97.080 137 4 0 6 142 94 230 2.74e-95 274
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05188.t1 AT5G37475 67.883 137 42 2 6 142 91 225 6.46e-53 167
MS.gene05188.t1 AT5G37475 67.883 137 42 2 6 142 91 225 6.46e-53 167
MS.gene05188.t1 AT5G37475 67.883 137 42 2 6 142 91 225 6.46e-53 167
MS.gene05188.t1 AT1G66070 65.693 137 45 2 6 142 92 226 1.13e-52 166
MS.gene05188.t1 AT1G66070 65.693 137 45 2 6 142 92 226 1.13e-52 166

Find 19 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAGAAAAGTTATCATTATA+TGG 0.227051 6.4:+52299960 MS.gene05188:intron
GAAATCTGAGAGTGATTTCT+TGG 0.281694 6.4:+52299820 MS.gene05188:CDS
TACAGAAGACGCAATATCTT+TGG 0.316638 6.4:-52300037 None:intergenic
GAATGAGGACATCATATAAA+AGG 0.331610 6.4:+52299655 None:intergenic
ATATCGATGACTTCTCTAAA+AGG 0.352339 6.4:+52300006 MS.gene05188:CDS
AAGAAATCACTCTCAGATTT+CGG 0.374125 6.4:-52299818 None:intergenic
AGTTGAAGAAGCAGATTATA+AGG 0.395629 6.4:+52299739 MS.gene05188:CDS
AAGGCCACTAAGGAATTGTT+TGG 0.397033 6.4:+52299758 MS.gene05188:CDS
GCAGCAACAAAATCTTCATC+AGG 0.455398 6.4:-52300257 None:intergenic
TGCTGATCGATATGATGCTT+TGG 0.462854 6.4:+52300277 MS.gene05188:CDS
CAGAAAAGTTATCATTATAT+GGG 0.471042 6.4:+52299961 MS.gene05188:intron
GGACATCATATAAAAGGAAC+AGG 0.480441 6.4:+52299661 MS.gene05188:CDS
ACCACCAAACAATTCCTTAG+TGG 0.482673 6.4:-52299762 None:intergenic
AGCAGATTATAAGGCCACTA+AGG 0.514749 6.4:+52299748 MS.gene05188:CDS
ATTTCGGTATAAAAGTATCA+AGG 0.522172 6.4:-52299802 None:intergenic
ACTAAGGAATTGTTTGGTGG+TGG 0.543912 6.4:+52299764 MS.gene05188:CDS
GCCACTAAGGAATTGTTTGG+TGG 0.550879 6.4:+52299761 MS.gene05188:CDS
GCAGAGAAAGAAGCCAATGC+TGG 0.560128 6.4:+52300087 MS.gene05188:CDS
ATGCAGAGCTCATCTCACAC+AGG 0.689643 6.4:+52299846 MS.gene05188:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACATTCTACAAATAGTTAAA+AGG - chr6.4:52299914-52299933 None:intergenic 20.0%
!! ATAATAAAAGCAACATAGAA+AGG - chr6.4:52300150-52300169 None:intergenic 20.0%
!! CAGAAAAGTTATCATTATAT+GGG + chr6.4:52299961-52299980 MS.gene05188:intron 20.0%
!! TACAAATAGTTAAAAGGAAA+GGG - chr6.4:52299908-52299927 None:intergenic 20.0%
! AAAATTGAAATCAATGGGAA+AGG - chr6.4:52300190-52300209 None:intergenic 25.0%
! CATAGGAAGTAAATTAAATC+AGG - chr6.4:52299712-52299731 None:intergenic 25.0%
! CTACAAATAGTTAAAAGGAA+AGG - chr6.4:52299909-52299928 None:intergenic 25.0%
! GCAGAAAAGTTATCATTATA+TGG + chr6.4:52299960-52299979 MS.gene05188:intron 25.0%
! GGCAAAAAATTGAAATCAAT+GGG - chr6.4:52300195-52300214 None:intergenic 25.0%
!! TTTGATCTTTTCATTTGCAA+TGG - chr6.4:52300067-52300086 None:intergenic 25.0%
!!! ATTTCGGTATAAAAGTATCA+AGG - chr6.4:52299805-52299824 None:intergenic 25.0%
AAGAAATCACTCTCAGATTT+CGG - chr6.4:52299821-52299840 None:intergenic 30.0%
AGTTGAAGAAGCAGATTATA+AGG + chr6.4:52299739-52299758 MS.gene05188:CDS 30.0%
ATATCGATGACTTCTCTAAA+AGG + chr6.4:52300006-52300025 MS.gene05188:CDS 30.0%
CATTCATCAAGAAGAAAGTT+AGG - chr6.4:52299941-52299960 None:intergenic 30.0%
CGGCAAAAAATTGAAATCAA+TGG - chr6.4:52300196-52300215 None:intergenic 30.0%
! AACTTGCTCAAGTCTAAATT+AGG - chr6.4:52299689-52299708 None:intergenic 30.0%
AATGCTGGTAAAAAGAAGAC+AGG + chr6.4:52300102-52300121 MS.gene05188:CDS 35.0%
ATTGAAATCAATGGGAAAGG+AGG - chr6.4:52300187-52300206 None:intergenic 35.0%
GAAATCTGAGAGTGATTTCT+TGG + chr6.4:52299820-52299839 MS.gene05188:CDS 35.0%
GGACATCATATAAAAGGAAC+AGG + chr6.4:52299661-52299680 MS.gene05188:CDS 35.0%
TACAGAAGACGCAATATCTT+TGG - chr6.4:52300040-52300059 None:intergenic 35.0%
! TGTCTTCTTTTTACCAGCAT+TGG - chr6.4:52300103-52300122 None:intergenic 35.0%
! TTCTTCAACTAGTCTGTCAT+AGG - chr6.4:52299729-52299748 None:intergenic 35.0%
!!! CAATTTTTTGCCGTGTCTTT+AGG + chr6.4:52300203-52300222 MS.gene05188:intron 35.0%
AAGGCCACTAAGGAATTGTT+TGG + chr6.4:52299758-52299777 MS.gene05188:CDS 40.0%
ACCACCAAACAATTCCTTAG+TGG - chr6.4:52299765-52299784 None:intergenic 40.0%
AGCAGATTATAAGGCCACTA+AGG + chr6.4:52299748-52299767 MS.gene05188:CDS 40.0%
GCAGCAACAAAATCTTCATC+AGG - chr6.4:52300260-52300279 None:intergenic 40.0%
TGCTGATCGATATGATGCTT+TGG + chr6.4:52300277-52300296 MS.gene05188:CDS 40.0%
TTTCTTGCCACCTAAAGACA+CGG - chr6.4:52300216-52300235 None:intergenic 40.0%
! ACTAAGGAATTGTTTGGTGG+TGG + chr6.4:52299764-52299783 MS.gene05188:CDS 40.0%
!!! TTTTTTGCCGTGTCTTTAGG+TGG + chr6.4:52300206-52300225 MS.gene05188:intron 40.0%
GCCACTAAGGAATTGTTTGG+TGG + chr6.4:52299761-52299780 MS.gene05188:CDS 45.0%
ATGCAGAGCTCATCTCACAC+AGG + chr6.4:52299846-52299865 MS.gene05188:CDS 50.0%
GCAGAGAAAGAAGCCAATGC+TGG + chr6.4:52300087-52300106 MS.gene05188:CDS 50.0%
! ACACAGGCTTCGTGCTTTTG+AGG + chr6.4:52299862-52299881 MS.gene05188:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 52299657 52300319 52299657 ID=MS.gene05188
chr6.4 mRNA 52299657 52300319 52299657 ID=MS.gene05188.t1;Parent=MS.gene05188
chr6.4 exon 52299657 52299682 52299657 ID=MS.gene05188.t1.exon1;Parent=MS.gene05188.t1
chr6.4 CDS 52299657 52299682 52299657 ID=cds.MS.gene05188.t1;Parent=MS.gene05188.t1
chr6.4 exon 52299736 52299883 52299736 ID=MS.gene05188.t1.exon2;Parent=MS.gene05188.t1
chr6.4 CDS 52299736 52299883 52299736 ID=cds.MS.gene05188.t1;Parent=MS.gene05188.t1
chr6.4 exon 52299964 52300123 52299964 ID=MS.gene05188.t1.exon3;Parent=MS.gene05188.t1
chr6.4 CDS 52299964 52300123 52299964 ID=cds.MS.gene05188.t1;Parent=MS.gene05188.t1
chr6.4 exon 52300225 52300319 52300225 ID=MS.gene05188.t1.exon4;Parent=MS.gene05188.t1
chr6.4 CDS 52300225 52300319 52300225 ID=cds.MS.gene05188.t1;Parent=MS.gene05188.t1
Gene Sequence

>MS.gene05188

ATGAGGACATCATATAAAAGGAACAGGTACCTAATTTAGACTTGAGCAAGTTCCTGATTTAATTTACTTCCTATGACAGACTAGTTGAAGAAGCAGATTATAAGGCCACTAAGGAATTGTTTGGTGGTGGTAACGATGAAAAGAACCTTGATACTTTTATACCGAAATCTGAGAGTGATTTCTTGGAGTATGCAGAGCTCATCTCACACAGGCTTCGTGCTTTTGAGGTCAAATACTTCTGTTTCTTACCCTTTCCTTTTAACTATTTGTAGAATGTGCATCCTAACTTTCTTCTTGATGAATGCAGAAAAGTTATCATTATATGGGTCTACTGAAGAATGTAATGAGAATATCGATGACTTCTCTAAAAGGAGCAGATGCCAAAGATATTGCGTCTTCTGTAACTGCCATTGCAAATGAAAAGATCAAAGCAGAGAAAGAAGCCAATGCTGGTAAAAAGAAGACAGGTAAGTTCAACTTAACATTAGAACCTTTCTATGTTGCTTTTATTATTCATGTTATCTTCTCCTCCTTTCCCATTGATTTCAATTTTTTGCCGTGTCTTTAGGTGGCAAGAAAAAGCAGCTTACTGTTGACAAACCTGATGAAGATTTTGTTGCTGCTGATCGATATGATGCTTTGGACGATTATGATTTTATGTGA

Protein sequence

>MS.gene05188.t1

MRTSYKRNRLVEEADYKATKELFGGGNDEKNLDTFIPKSESDFLEYAELISHRLRAFEKSYHYMGLLKNVMRISMTSLKGADAKDIASSVTAIANEKIKAEKEANAGKKKTGGKKKQLTVDKPDEDFVAADRYDALDDYDFM