AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62407

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62407.t1 MTR_4g114600 74.497 149 5 3 1 117 1 148 2.42e-66 197
MS.gene62407.t1 MTR_2g103750 35.556 135 62 6 1 112 1 133 2.29e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACAAAGCTGCTCTGTTTGC+AGG 0.285163 8.2:+14098089 None:intergenic
AACAGAGCAGCTTTGTATAA+TGG 0.334899 8.2:-14098083 MS.gene62407:CDS
GAAATTGAATTCAAGATCAA+AGG 0.482344 8.2:-14098153 MS.gene62407:CDS
AAGGTTCAAAAGAATTGTAA+TGG 0.522701 8.2:-14098134 MS.gene62407:CDS
GTTGTGGATTCATGTAAAGA+TGG 0.540155 8.2:-14098239 MS.gene62407:CDS
GCAACCGCCATGGCTGTCTC+CGG 0.543566 8.2:-14098512 MS.gene62407:CDS
AGATCGTGTGAATCAACGAT+TGG 0.545757 8.2:-14098051 MS.gene62407:CDS
GTTCAAAAGAATTGTAATGG+TGG 0.561934 8.2:-14098131 MS.gene62407:CDS
TGCTGTCTTTGCAACCGCCA+TGG 0.563392 8.2:-14098522 MS.gene62407:CDS
AGCAAGGATGATGACTGTGC+CGG 0.571426 8.2:+14098493 None:intergenic
ATTTCTGAAGACGGAGAGCA+AGG 0.583155 8.2:+14098477 None:intergenic
GACTGTGCCGGAGACAGCCA+TGG 0.611754 8.2:+14098505 None:intergenic
TGCAAAGACAGCACCTTGTG+AGG 0.629596 8.2:+14098532 None:intergenic
TCTTCAATGATTACCTCACA+AGG 0.650992 8.2:-14098545 MS.gene62407:CDS
AATGGTGGAAACGAGAACAG+AGG 0.717333 8.2:-14098116 MS.gene62407:CDS
GAGTACAGAAAACAACAACA+TGG 0.720965 8.2:-14098212 MS.gene62407:CDS
TGTGCCGGAGACAGCCATGG+CGG 0.736789 8.2:+14098508 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTGTTAACATAATTCT+TGG - chr8.2:14098265-14098284 MS.gene62407:CDS 15.0%
! AAGGTTCAAAAGAATTGTAA+TGG - chr8.2:14098454-14098473 MS.gene62407:intron 25.0%
! GAAATTGAATTCAAGATCAA+AGG - chr8.2:14098435-14098454 MS.gene62407:intron 25.0%
!! AACAAGGTTTTTCTCTTTTT+AGG - chr8.2:14098237-14098256 MS.gene62407:CDS 25.0%
!! ACAAGGTTTTTCTCTTTTTA+GGG - chr8.2:14098238-14098257 MS.gene62407:CDS 25.0%
!!! TTCTTTGTTTTCTTTTCATC+TGG + chr8.2:14098298-14098317 None:intergenic 25.0%
AAGAAGAAGAAGAAGAAACA+TGG + chr8.2:14098153-14098172 None:intergenic 30.0%
AGTAAAAAGTAACTTACCAG+AGG + chr8.2:14098203-14098222 None:intergenic 30.0%
GATAAACAAGAACGTAGAAT+AGG + chr8.2:14098181-14098200 None:intergenic 30.0%
GTTCAAAAGAATTGTAATGG+TGG - chr8.2:14098457-14098476 MS.gene62407:intron 30.0%
!!! GAAAAGAGTTAGTTTTGCTA+AGG - chr8.2:14098324-14098343 MS.gene62407:intron 30.0%
AAACATGGTGAAGAGAGAAT+TGG + chr8.2:14098138-14098157 None:intergenic 35.0%
AACATGGTGAAGAGAGAATT+GGG + chr8.2:14098137-14098156 None:intergenic 35.0%
CTACACACATTGAACAAACA+AGG - chr8.2:14098221-14098240 MS.gene62407:CDS 35.0%
GAGTACAGAAAACAACAACA+TGG - chr8.2:14098376-14098395 MS.gene62407:intron 35.0%
GTTGTGGATTCATGTAAAGA+TGG - chr8.2:14098349-14098368 MS.gene62407:intron 35.0%
TCTTCAATGATTACCTCACA+AGG - chr8.2:14098043-14098062 MS.gene62407:CDS 35.0%
! AACAGAGCAGCTTTGTATAA+TGG - chr8.2:14098505-14098524 MS.gene62407:CDS 35.0%
! AGAATTGGGATTTCTGAAGA+CGG + chr8.2:14098123-14098142 None:intergenic 35.0%
!! TAGTTTTGCTAAGGATGTTG+TGG - chr8.2:14098333-14098352 MS.gene62407:intron 35.0%
AGATCGTGTGAATCAACGAT+TGG - chr8.2:14098537-14098556 MS.gene62407:CDS 40.0%
! CTACGTTCTTGTTTATCCTC+TGG - chr8.2:14098184-14098203 MS.gene62407:CDS 40.0%
TACAAAGCTGCTCTGTTTGC+AGG + chr8.2:14098502-14098521 None:intergenic 45.0%
! AATGGTGGAAACGAGAACAG+AGG - chr8.2:14098472-14098491 MS.gene62407:intron 45.0%
! ATTTCTGAAGACGGAGAGCA+AGG + chr8.2:14098114-14098133 None:intergenic 45.0%
AGCAAGGATGATGACTGTGC+CGG + chr8.2:14098098-14098117 None:intergenic 50.0%
TGCAAAGACAGCACCTTGTG+AGG + chr8.2:14098059-14098078 None:intergenic 50.0%
TGCTGTCTTTGCAACCGCCA+TGG - chr8.2:14098066-14098085 MS.gene62407:CDS 55.0%
GACTGTGCCGGAGACAGCCA+TGG + chr8.2:14098086-14098105 None:intergenic 65.0%
GCAACCGCCATGGCTGTCTC+CGG - chr8.2:14098076-14098095 MS.gene62407:CDS 65.0%
TGTGCCGGAGACAGCCATGG+CGG + chr8.2:14098083-14098102 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 14098040 14098570 14098040 ID=MS.gene62407
chr8.2 mRNA 14098040 14098570 14098040 ID=MS.gene62407.t1;Parent=MS.gene62407
chr8.2 exon 14098489 14098570 14098489 ID=MS.gene62407.t1.exon1;Parent=MS.gene62407.t1
chr8.2 CDS 14098489 14098570 14098489 ID=cds.MS.gene62407.t1;Parent=MS.gene62407.t1
chr8.2 exon 14098040 14098311 14098040 ID=MS.gene62407.t1.exon2;Parent=MS.gene62407.t1
chr8.2 CDS 14098040 14098311 14098040 ID=cds.MS.gene62407.t1;Parent=MS.gene62407.t1
Gene Sequence

>MS.gene62407

ATGTCTTCAATGATTACCTCACAAGGTGCTGTCTTTGCAACCGCCATGGCTGTCTCCGGCACAGTCATCATCCTTGCTCTCCGTCTTCAGAAATCCCAATTCTCTCTTCACCATGTTTCTTCTTCTTCTTCTTCAACTCCTATTCTACGTTCTTGTTTATCCTCTGGTAAGTTACTTTTTACTACACACATTGAACAAACAAGGTTTTTCTCTTTTTAGGGTTTCTTTTTTGTTAACATAATTCTTGGTTTTTGACCAGATGAAAAGAAAACAAAGAAACTGAAGAAAAGAGTTAGTTTTGCTAAGGATGTTGTGGATTCATGTAAAGATGGAGAAGAGTACAGAAAACAACAACATGGTACTAGTACTATGAATAATACTACTAAACATTCTTTGAAATTGAATTCAAGATCAAAGGTTCAAAAGAATTGTAATGGTGGAAACGAGAACAGAGGAATGCCTGCAAACAGAGCAGCTTTGTATAATGGAATTCTTAGAGATCGTGTGAATCAACGATTGGCTTATTGTTGA
Protein sequence

>MS.gene62407.t1

MSSMITSQGAVFATAMAVSGTVIILALHEKKTKKLKKRVSFAKDVVDSCKDGEEYRKQQHGTSTMNNTTKHSLKLNSRSKVQKNCNGGNENRGMPANRAALYNGILRDRVNQRLAYC