AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1173150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1173150 MtrunA17_Chr1g0152341 91.026 156 6 2 1 153 10 160 2.08e-89 257
Msa1173150 MtrunA17_Chr3g0134971 57.516 153 50 5 2 150 13 154 1.21e-47 151
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1173150 AT1G10140.1 46.104 154 74 5 2 147 8 160 9.13e-22 86.3
Msa1173150 AT1G58420.1 43.373 166 76 4 2 150 11 175 3.97e-19 79.7

Find 19 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACAGCAGAAATTGAATAA+AGG 0.334932 8_1:-3352842 Msa1173150:CDS
TGTTCACCAATAAGAGCATT+AGG 0.382819 8_1:-3353118 Msa1173150:CDS
AACAGCAGAAATTGAATAAA+GGG 0.389999 8_1:-3352841 Msa1173150:CDS
TCTAGTGTTGAAGGAAAAGT+TGG 0.393697 8_1:-3352761 Msa1173150:CDS
ACAGCATAACTCTTTGATCT+AGG 0.434486 8_1:+3352719 None:intergenic
AAGATCATCAGCATCATTAG+AGG 0.441233 8_1:-3352954 Msa1173150:CDS
TGTGGTCAAAATATGAGTTA+TGG 0.456641 8_1:-3353058 Msa1173150:CDS
CCTTCAACACTAGAATCAAA+AGG 0.478362 8_1:+3352770 None:intergenic
TTTAGTTAATAGAATTGATG+TGG 0.523602 8_1:-3352885 Msa1173150:CDS
AATTTACTAGCAGCATCCAT+TGG 0.526181 8_1:+3353028 None:intergenic
TTACCTAAGTCTAGTAGTGT+TGG 0.528478 8_1:-3352818 Msa1173150:CDS
ATTCCAACACTACTAGACTT+AGG 0.543949 8_1:+3352815 None:intergenic
TAAGTCTAGTAGTGTTGGAA+TGG 0.550381 8_1:-3352813 Msa1173150:CDS
AGATCAAAGAGTTATGCTGT+TGG 0.581741 8_1:-3352716 Msa1173150:CDS
GAGTTATGGAAGTTATCCAA+TGG 0.620886 8_1:-3353044 Msa1173150:CDS
AGATCATCAGCATCATTAGA+GGG 0.626119 8_1:-3352953 Msa1173150:CDS
AGAACCAAAACATGTTTGTG+AGG 0.637515 8_1:-3353147 None:intergenic
TGGAATGGCTAAGATTGATG+AGG 0.704946 8_1:-3352798 Msa1173150:CDS
GTAAGAAGCATAACAAACTG+TGG 0.710541 8_1:-3353076 Msa1173150:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAGTTAATAGAATTGATG+TGG - chr8_1:3352939-3352958 Msa1173150:CDS 20.0%
! AACAGCAGAAATTGAATAAA+GGG - chr8_1:3352983-3353002 Msa1173150:CDS 25.0%
TGTGGTCAAAATATGAGTTA+TGG - chr8_1:3352766-3352785 Msa1173150:CDS 30.0%
CAACAGCAGAAATTGAATAA+AGG - chr8_1:3352982-3353001 Msa1173150:CDS 30.0%
!! TGTTCACCAATAAGAGCATT+AGG - chr8_1:3352706-3352725 Msa1173150:CDS 35.0%
! GCTTTTCCTAATGCTCTTAT+TGG + chr8_1:3352715-3352734 None:intergenic 35.0%
! GTAAGAAGCATAACAAACTG+TGG - chr8_1:3352748-3352767 Msa1173150:CDS 35.0%
GAGTTATGGAAGTTATCCAA+TGG - chr8_1:3352780-3352799 Msa1173150:CDS 35.0%
AATTTACTAGCAGCATCCAT+TGG + chr8_1:3352799-3352818 None:intergenic 35.0%
AAGATCATCAGCATCATTAG+AGG - chr8_1:3352870-3352889 Msa1173150:CDS 35.0%
AGATCATCAGCATCATTAGA+GGG - chr8_1:3352871-3352890 Msa1173150:CDS 35.0%
!! AAGATTTTGCTGAGCTTGTT+AGG - chr8_1:3352899-3352918 Msa1173150:CDS 35.0%
!!! AGATTTTGCTGAGCTTGTTA+GGG - chr8_1:3352900-3352919 Msa1173150:CDS 35.0%
TTACCTAAGTCTAGTAGTGT+TGG - chr8_1:3353006-3353025 Msa1173150:CDS 35.0%
ATTCCAACACTACTAGACTT+AGG + chr8_1:3353012-3353031 None:intergenic 35.0%
! TAAGTCTAGTAGTGTTGGAA+TGG - chr8_1:3353011-3353030 Msa1173150:CDS 35.0%
CCTTCAACACTAGAATCAAA+AGG + chr8_1:3353057-3353076 None:intergenic 35.0%
!! CCTTTTGATTCTAGTGTTGA+AGG - chr8_1:3353054-3353073 Msa1173150:CDS 35.0%
! TCTAGTGTTGAAGGAAAAGT+TGG - chr8_1:3353063-3353082 Msa1173150:CDS 35.0%
ACAGCATAACTCTTTGATCT+AGG + chr8_1:3353108-3353127 None:intergenic 35.0%
AGATCAAAGAGTTATGCTGT+TGG - chr8_1:3353108-3353127 Msa1173150:CDS 35.0%
TGGAATGGCTAAGATTGATG+AGG - chr8_1:3353026-3353045 Msa1173150:CDS 40.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 3352688 3353158 3352688 ID=Msa1173150;Name=Msa1173150
chr8_1 mRNA 3352688 3353158 3352688 ID=Msa1173150-mRNA-1;Parent=Msa1173150;Name=Msa1173150-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|-1|0|1|-1|1|1|0|156
chr8_1 exon 3352688 3353158 3352688 ID=Msa1173150-mRNA-1:exon:1220;Parent=Msa1173150-mRNA-1
chr8_1 CDS 3352688 3353158 3352688 ID=Msa1173150-mRNA-1:cds;Parent=Msa1173150-mRNA-1
Gene Sequence

>Msa1173150

ATGTTTGTGAGGATCATGTGTTCACCAATAAGAGCATTAGGAAAAGCAAGAGATGCATACGTAAGAAGCATAACAAACTGTGGTCAAAATATGAGTTATGGAAGTTATCCAATGGATGCTGCTAGTAAATTTTCTTTATCAAGAAGTCAAAGTGCAGCAACATCAAGAAGATCATCATCAAGAAGATCATCAGCATCATTAGAGGGTAATGAAGATTTTGCTGAGCTTGTTAGGGCTGCTTCTGCTAGAACTTTAGTTAATAGAATTGATGTGGATTTAGTTCTCAAGCAACAACAACAGCAGAAATTGAATAAAGGGTTACCTAAGTCTAGTAGTGTTGGAATGGCTAAGATTGATGAGGATATGCCTTTTGATTCTAGTGTTGAAGGAAAAGTTGGTTTTGTTGCTGATTCTTATCCTAGATCAAAGAGTTATGCTGTTGGACATAGAAGAAATGTTGTTGCTTTCTGA

Protein sequence

>Msa1173150

MFVRIMCSPIRALGKARDAYVRSITNCGQNMSYGSYPMDAASKFSLSRSQSAATSRRSSSRRSSASLEGNEDFAELVRAASARTLVNRIDVDLVLKQQQQQKLNKGLPKSSSVGMAKIDEDMPFDSSVEGKVGFVADSYPRSKSYAVGHRRNVVAF*