AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1394220


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394220 MtrunA17_CPg0492961 95.489 133 6 0 1 133 50 182 7.80e-89 256
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394220 ATCG00130.1 81.538 130 24 0 1 130 52 181 1.53e-72 215

Find 25 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGCTAATATTGATATGTTT+GGG 0.275522 tig0021785:+85160 Msa1394220:CDS
GGTGCTAATATTGATATGTT+TGG 0.316362 tig0021785:+85159 Msa1394220:CDS
CTACTTTCCTTAAGCGGGCC+CGG 0.340021 tig0021785:-84894 None:intergenic
TAATTCAATTTATACAACTT+TGG 0.388293 tig0021785:+84984 Msa1394220:CDS
TGAATTGAAAGATTCATGTT+TGG 0.391532 tig0021785:+84719 None:intergenic
AGAAAGCCCGGGCCCGCTTA+AGG 0.414131 tig0021785:+84887 Msa1394220:CDS
CGTTTCTACTTTCCTTAAGC+GGG 0.444690 tig0021785:-84899 None:intergenic
GCGGATCGGTTTCGAGTGAA+TGG 0.446998 tig0021785:+84925 Msa1394220:CDS
TTCAAAATTCAGAAGAACTA+CGG 0.449969 tig0021785:+84842 Msa1394220:CDS
GGAAGCAGCCGTTGAACAGC+TGG 0.450450 tig0021785:+84864 Msa1394220:CDS
ACAAGCATTACAAGGAGCTC+TGG 0.452163 tig0021785:+85089 Msa1394220:CDS
TACTTTCCTTAAGCGGGCCC+GGG 0.461743 tig0021785:-84893 None:intergenic
TTGAACAGCTGGAGAAAGCC+CGG 0.472109 tig0021785:+84875 Msa1394220:CDS
GGCTTTCTCCAGCTGTTCAA+CGG 0.504402 tig0021785:-84872 None:intergenic
TCAAAATTCAGAAGAACTAC+GGG 0.510719 tig0021785:+84843 Msa1394220:CDS
CCGTTTCTACTTTCCTTAAG+CGG 0.521089 tig0021785:-84900 None:intergenic
CAAGCATTACAAGGAGCTCT+GGG 0.568354 tig0021785:+85090 Msa1394220:CDS
AAGTAGAAACGGAAGCGGAT+CGG 0.570689 tig0021785:+84911 Msa1394220:CDS
CCGCTTAAGGAAAGTAGAAA+CGG 0.573518 tig0021785:+84900 Msa1394220:CDS
TGAACAGCTGGAGAAAGCCC+GGG 0.575165 tig0021785:+84876 Msa1394220:CDS
TGCTAATATTGATATGTTTG+GGG 0.586102 tig0021785:+85161 Msa1394220:CDS
CGATTAATCAAGTGCAACAG+AGG 0.596922 tig0021785:+85058 Msa1394220:CDS
GAGTTACATTTACGTACGAT+CGG 0.617220 tig0021785:+85138 Msa1394220:CDS
AAGGAAAGTAGAAACGGAAG+CGG 0.622485 tig0021785:+84906 Msa1394220:CDS
GATTAATCAAGTGCAACAGA+GGG 0.644246 tig0021785:+85059 Msa1394220:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATTCAATTTATACAACTT+TGG + tig0021785:84984-85003 Msa1394220:CDS 15.0%
! TTCAAAATTCAGAAGAACTA+CGG + tig0021785:84842-84861 Msa1394220:CDS 25.0%
!! GATTCATTTTGAACAACAAA+GGG + tig0021785:85035-85054 Msa1394220:CDS 25.0%
! GTGCTAATATTGATATGTTT+GGG + tig0021785:85160-85179 Msa1394220:CDS 25.0%
! TGCTAATATTGATATGTTTG+GGG + tig0021785:85161-85180 Msa1394220:CDS 25.0%
TCAAAATTCAGAAGAACTAC+GGG + tig0021785:84843-84862 Msa1394220:CDS 30.0%
! CAATTTTTCTCGTTCTATCT+CGG - tig0021785:84956-84975 None:intergenic 30.0%
! CGATTCATTTTGAACAACAA+AGG + tig0021785:85034-85053 Msa1394220:CDS 30.0%
! GTTTTACAACAAGCATTACA+AGG + tig0021785:85081-85100 Msa1394220:CDS 30.0%
GGTGCTAATATTGATATGTT+TGG + tig0021785:85159-85178 Msa1394220:CDS 30.0%
GATTAATCAAGTGCAACAGA+GGG + tig0021785:85059-85078 Msa1394220:CDS 35.0%
GAGTTACATTTACGTACGAT+CGG + tig0021785:85138-85157 Msa1394220:CDS 35.0%
CGTTTCTACTTTCCTTAAGC+GGG - tig0021785:84902-84921 None:intergenic 40.0%
CCGTTTCTACTTTCCTTAAG+CGG - tig0021785:84903-84922 None:intergenic 40.0%
CCGCTTAAGGAAAGTAGAAA+CGG + tig0021785:84900-84919 Msa1394220:CDS 40.0%
AAGGAAAGTAGAAACGGAAG+CGG + tig0021785:84906-84925 Msa1394220:CDS 40.0%
CGATTAATCAAGTGCAACAG+AGG + tig0021785:85058-85077 Msa1394220:CDS 40.0%
AAGTAGAAACGGAAGCGGAT+CGG + tig0021785:84911-84930 Msa1394220:CDS 45.0%
ACAAGCATTACAAGGAGCTC+TGG + tig0021785:85089-85108 Msa1394220:CDS 45.0%
CAAGCATTACAAGGAGCTCT+GGG + tig0021785:85090-85109 Msa1394220:CDS 45.0%
GGCTTTCTCCAGCTGTTCAA+CGG - tig0021785:84875-84894 None:intergenic 50.0%
TTGAACAGCTGGAGAAAGCC+CGG + tig0021785:84875-84894 Msa1394220:CDS 50.0%
TGAACAGCTGGAGAAAGCCC+GGG + tig0021785:84876-84895 Msa1394220:CDS 55.0%
TACTTTCCTTAAGCGGGCCC+GGG - tig0021785:84896-84915 None:intergenic 55.0%
CTACTTTCCTTAAGCGGGCC+CGG - tig0021785:84897-84916 None:intergenic 55.0%
! GCGGATCGGTTTCGAGTGAA+TGG + tig0021785:84925-84944 Msa1394220:CDS 55.0%
GGAAGCAGCCGTTGAACAGC+TGG + tig0021785:84864-84883 Msa1394220:CDS 60.0%
AGAAAGCCCGGGCCCGCTTA+AGG + tig0021785:84887-84906 Msa1394220:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0021785 gene 84734 85206 84734 ID=Msa1394220;Name=Msa1394220
tig0021785 mRNA 84734 85206 84734 ID=Msa1394220-mRNA-1;Parent=Msa1394220;Name=Msa1394220-mRNA-1;_AED=0.48;_eAED=0.49;_QI=0|0|0|1|1|1|2|0|133
tig0021785 exon 84734 84740 84734 ID=Msa1394220-mRNA-1:exon:14200;Parent=Msa1394220-mRNA-1
tig0021785 exon 84812 85206 84812 ID=Msa1394220-mRNA-1:exon:14201;Parent=Msa1394220-mRNA-1
tig0021785 CDS 84734 84740 84734 ID=Msa1394220-mRNA-1:cds;Parent=Msa1394220-mRNA-1
tig0021785 CDS 84812 85206 84812 ID=Msa1394220-mRNA-1:cds;Parent=Msa1394220-mRNA-1
Gene Sequence

>Msa1394220

ATGTTTGATAATCGAAAACAGAGAATCTTGAGAACTATTCAAAATTCAGAAGAACTACGGGAAGCAGCCGTTGAACAGCTGGAGAAAGCCCGGGCCCGCTTAAGGAAAGTAGAAACGGAAGCGGATCGGTTTCGAGTGAATGGTTATTCCGAGATAGAACGAGAAAAATTGAATTTAATTAATTCAATTTATACAACTTTGGAACAATTCGAAAATTACAAAAATGAAACGATTCATTTTGAACAACAAAGGGCGATTAATCAAGTGCAACAGAGGGTTTTACAACAAGCATTACAAGGAGCTCTGGGAACTCTGAATAGTTGCTTAAACAACGAGTTACATTTACGTACGATCGGTGCTAATATTGATATGTTTGGGGCGATGAAAGAAAAAAAGAACTGA

Protein sequence

>Msa1394220

MFDNRKQRILRTIQNSEELREAAVEQLEKARARLRKVETEADRFRVNGYSEIEREKLNLINSIYTTLEQFENYKNETIHFEQQRAINQVQQRVLQQALQGALGTLNSCLNNELHLRTIGANIDMFGAMKEKKN*