AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880043547.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880043547.01.T01 MTR_8g038150 50.495 101 5 1 1 101 1 56 5.59e-22 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 14 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAAAATTTATGTAGGAAT+TGG 0.245176 8:-26426499 MsG0880043547.01.T01:CDS
TTAATGTTGATGATGGTTAT+TGG 0.276349 8:-26426519 MsG0880043547.01.T01:CDS
AAAGAGTTAATCTTGGTGTT+AGG 0.350373 8:-26426466 MsG0880043547.01.T01:CDS
TCTAAAATCACCAGAGAGTT+CGG 0.421715 8:+26426361 None:intergenic
AGACGTTCAGTGTCTGTGTT+AGG 0.424878 8:+26426900 None:intergenic
CGTCTTCAATCCGAACTCTC+TGG 0.460875 8:-26426371 MsG0880043547.01.T01:CDS
TTAGGAGAAGGAACAATCTC+TGG 0.472780 8:+26426918 None:intergenic
GGTTATTGGAAAATTTATGT+AGG 0.477165 8:-26426505 MsG0880043547.01.T01:CDS
AAAGAGAAAGAGAGAAACCT+TGG 0.485422 8:+26426865 None:intergenic
CGTCTTAGAAATGCTTTCCA+AGG 0.502094 8:-26426882 MsG0880043547.01.T01:CDS
GAGATTGTTAATGTTGATGA+TGG 0.506917 8:-26426526 MsG0880043547.01.T01:CDS
TAGAAATGCTCAACAAAGGA+AGG 0.572954 8:-26426440 MsG0880043547.01.T01:CDS
TCAGTGTCTGTGTTAGGAGA+AGG 0.593736 8:+26426906 None:intergenic
GACATAGAAATGCTCAACAA+AGG 0.603561 8:-26426444 MsG0880043547.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTTTATGTTTTTATTAA+TGG - Chr8:26426513-26426532 MsG0880043547.01.T01:CDS 10.0%
!!! TATATCTTTTTGTATTCTTT+TGG - Chr8:26426656-26426675 MsG0880043547.01.T01:intron 15.0%
!!! AGAGGAATTTTTTTATTCAT+TGG - Chr8:26426598-26426617 MsG0880043547.01.T01:intron 20.0%
! AGATGAAAAAGAGTTAATCT+TGG - Chr8:26426778-26426797 MsG0880043547.01.T01:intron 25.0%
! GGTTATTGGAAAATTTATGT+AGG - Chr8:26426746-26426765 MsG0880043547.01.T01:intron 25.0%
! TGGAAAATTTATGTAGGAAT+TGG - Chr8:26426752-26426771 MsG0880043547.01.T01:intron 25.0%
!!! TTAATGTTGATGATGGTTAT+TGG - Chr8:26426732-26426751 MsG0880043547.01.T01:intron 25.0%
TGAATCACAAAGATTTGTAG+AGG - Chr8:26426580-26426599 MsG0880043547.01.T01:intron 30.0%
! GAGATTGTTAATGTTGATGA+TGG - Chr8:26426725-26426744 MsG0880043547.01.T01:intron 30.0%
!! AAAGAGTTAATCTTGGTGTT+AGG - Chr8:26426785-26426804 MsG0880043547.01.T01:intron 30.0%
!! ATTTTTGTATCGATGGTTGT+TGG - Chr8:26426692-26426711 MsG0880043547.01.T01:CDS 30.0%
!!! TATGCTGATTTTTGTATCGA+TGG - Chr8:26426685-26426704 MsG0880043547.01.T01:CDS 30.0%
AAAGAGAAAGAGAGAAACCT+TGG + Chr8:26426389-26426408 None:intergenic 35.0%
GACATAGAAATGCTCAACAA+AGG - Chr8:26426807-26426826 MsG0880043547.01.T01:intron 35.0%
TAGAAATGCTCAACAAAGGA+AGG - Chr8:26426811-26426830 MsG0880043547.01.T01:intron 35.0%
! TCTAAAATCACCAGAGAGTT+CGG + Chr8:26426893-26426912 None:intergenic 35.0%
CGTCTTAGAAATGCTTTCCA+AGG - Chr8:26426369-26426388 MsG0880043547.01.T01:CDS 40.0%
TTAGGAGAAGGAACAATCTC+TGG + Chr8:26426336-26426355 None:intergenic 40.0%
AGACGTTCAGTGTCTGTGTT+AGG + Chr8:26426354-26426373 None:intergenic 45.0%
TCAGTGTCTGTGTTAGGAGA+AGG + Chr8:26426348-26426367 None:intergenic 45.0%
!!! TTTTTTATGTTTTTATTAAT+GGG - Chr8:26426514-26426533 MsG0880043547.01.T01:CDS 5.0%
CGTCTTCAATCCGAACTCTC+TGG - Chr8:26426880-26426899 MsG0880043547.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr8 gene 26426315 26426958 26426315 ID=MsG0880043547.01;Name=MsG0880043547.01
Chr8 mRNA 26426315 26426958 26426315 ID=MsG0880043547.01.T01;Parent=MsG0880043547.01;Name=MsG0880043547.01.T01;_AED=0.55;_eAED=0.69;_QI=0|0|0|0.66|0|0|3|0|133
Chr8 exon 26426845 26426958 26426845 ID=MsG0880043547.01.T01:exon:34418;Parent=MsG0880043547.01.T01
Chr8 exon 26426678 26426727 26426678 ID=MsG0880043547.01.T01:exon:34417;Parent=MsG0880043547.01.T01
Chr8 exon 26426315 26426552 26426315 ID=MsG0880043547.01.T01:exon:34416;Parent=MsG0880043547.01.T01
Chr8 CDS 26426845 26426958 26426845 ID=MsG0880043547.01.T01:cds;Parent=MsG0880043547.01.T01
Chr8 CDS 26426678 26426727 26426678 ID=MsG0880043547.01.T01:cds;Parent=MsG0880043547.01.T01
Chr8 CDS 26426315 26426552 26426315 ID=MsG0880043547.01.T01:cds;Parent=MsG0880043547.01.T01
Gene Sequence

>MsG0880043547.01.T01

ATGGCTTCATTGAAACTACCAGAGATTGTTCCTTCTCCTAACACAGACACTGAACGTCTTAGAAATGCTTTCCAAGGTTTCTCTCTTTCTCTTTCTCTCTCTAATGCTATGAAAAAACGTTACTTTATAATATGCATGTTTGTAAAATTGAATCACAAAGATTTAAATGAGATTGTTAATGTTGATGATGGTTATTGGAAAATTTATGTAGGAATTGGAACAGATGAAAAAGAGTTAATCTTGGTGTTAGGACATAGAAATGCTCAACAAAGGAAGGAAATCAGAGAAACTTATCGCAACGTTACAATGAATCGCTTCTTGATCGTCTTCAATCCGAACTCTCTGGTGATTTTAGAGTATGTCATCATGTCATTCTTGCTTCCATTGACTTTTCATTTTTGA

Protein sequence

>MsG0880043547.01.T01

MASLKLPEIVPSPNTDTERLRNAFQGFSLSLSLSNAMKKRYFIICMFVKLNHKDLNEIVNVDDGYWKIYVGIGTDEKELILVLGHRNAQQRKEIRETYRNVTMNRFLIVFNPNSLVILEYVIMSFLLPLTFHF*