AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058419


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058419.t1 MTR_1g015290 97.600 125 3 0 1 125 1 125 7.43e-83 238
MS.gene058419.t1 MTR_3g104950 64.516 124 39 2 1 124 1 119 3.17e-47 148
MS.gene058419.t1 MTR_4g125600 59.524 126 39 6 1 124 1 116 4.40e-35 117
MS.gene058419.t1 MTR_2g041260 55.200 125 49 3 1 124 1 119 8.80e-23 86.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058419.t1 AT2G06520 56.604 106 44 2 20 125 13 116 2.16e-27 98.2

Find 25 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTGGGTGGCTTGGGTTAG+TGG 0.257951 1.4:+6794292 None:intergenic
TTTAACTAAGTTCTCTTAAC+AGG 0.285839 1.4:+6793962 None:intergenic
TGTTGTTCTTACAGCTATAT+TGG 0.300493 1.4:-6794014 MS.gene058419:CDS
GTTGTTCTTACAGCTATATT+GGG 0.346937 1.4:-6794013 MS.gene058419:CDS
GTCTTCTTTGCTTGTGGAAA+GGG 0.349407 1.4:+6794226 None:intergenic
GCTATATTGGGTGCTGTTGT+TGG 0.379016 1.4:-6794001 MS.gene058419:CDS
ACTTCAAAATCCAACCTTGT+TGG 0.385727 1.4:-6794187 MS.gene058419:CDS
ACTAGTGTCTTCTTTGCTTG+TGG 0.430477 1.4:+6794220 None:intergenic
CCAGATGTTGCTCATGCAGC+TGG 0.445643 1.4:-6794091 MS.gene058419:CDS
TGTCTTCTTTGCTTGTGGAA+AGG 0.459779 1.4:+6794225 None:intergenic
TTTGCTTGTGGAAAGGGCAA+TGG 0.463285 1.4:+6794232 None:intergenic
TCTCTTAACAGGATCAAAGT+TGG 0.467747 1.4:+6793973 None:intergenic
TGCTTGAATTCCAACAAGGT+TGG 0.477724 1.4:+6794177 None:intergenic
TTCAAGAAGGGTGTGGTGGA+AGG 0.483812 1.4:+6794256 None:intergenic
CCAGCTGCATGAGCAACATC+TGG 0.490868 1.4:+6794091 None:intergenic
TTGCTTAGCATTGCTGCTGG+TGG 0.565122 1.4:-6794037 MS.gene058419:CDS
ATTGAAAGACAAAACAGTGA+AGG 0.569072 1.4:-6794152 MS.gene058419:CDS
TTGAAAGACAAAACAGTGAA+GGG 0.580339 1.4:-6794151 MS.gene058419:CDS
AAGGGCAATGGTTTCAAGAA+GGG 0.584655 1.4:+6794244 None:intergenic
AAAGGGCAATGGTTTCAAGA+AGG 0.598373 1.4:+6794243 None:intergenic
CAATGGTTTCAAGAAGGGTG+TGG 0.606722 1.4:+6794249 None:intergenic
TGGTTTCAAGAAGGGTGTGG+TGG 0.610036 1.4:+6794252 None:intergenic
GTGTGGTGGAAGGATTGTGA+AGG 0.617280 1.4:+6794266 None:intergenic
AACATCTGGTAACACCATAG+AGG 0.635135 1.4:+6794105 None:intergenic
ATGATGCTTGAATTCCAACA+AGG 0.644146 1.4:+6794173 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGCAAAAAGTTTTTAAGAGA+TGG + chr1.4:6794237-6794256 None:intergenic 25.0%
ATTGAAAGACAAAACAGTGA+AGG - chr1.4:6794137-6794156 MS.gene058419:CDS 30.0%
GTTGTTCTTACAGCTATATT+GGG - chr1.4:6794276-6794295 MS.gene058419:CDS 30.0%
TGTTGTTCTTACAGCTATAT+TGG - chr1.4:6794275-6794294 MS.gene058419:CDS 30.0%
TTGAAAGACAAAACAGTGAA+GGG - chr1.4:6794138-6794157 MS.gene058419:CDS 30.0%
ACTTCAAAATCCAACCTTGT+TGG - chr1.4:6794102-6794121 MS.gene058419:CDS 35.0%
ATGATGCTTGAATTCCAACA+AGG + chr1.4:6794119-6794138 None:intergenic 35.0%
TCTCTTAACAGGATCAAAGT+TGG + chr1.4:6794319-6794338 None:intergenic 35.0%
! AAGGATTGTGAAGGTTTTTG+TGG + chr1.4:6794017-6794036 None:intergenic 35.0%
! AGGATTGTGAAGGTTTTTGT+GGG + chr1.4:6794016-6794035 None:intergenic 35.0%
! TTTTGCATTAACAGCCTCTA+TGG - chr1.4:6794170-6794189 MS.gene058419:CDS 35.0%
AAAGGGCAATGGTTTCAAGA+AGG + chr1.4:6794049-6794068 None:intergenic 40.0%
AACATCTGGTAACACCATAG+AGG + chr1.4:6794187-6794206 None:intergenic 40.0%
AAGGGCAATGGTTTCAAGAA+GGG + chr1.4:6794048-6794067 None:intergenic 40.0%
ACTAGTGTCTTCTTTGCTTG+TGG + chr1.4:6794072-6794091 None:intergenic 40.0%
GTCTTCTTTGCTTGTGGAAA+GGG + chr1.4:6794066-6794085 None:intergenic 40.0%
TGCTTGAATTCCAACAAGGT+TGG + chr1.4:6794115-6794134 None:intergenic 40.0%
TGTCTTCTTTGCTTGTGGAA+AGG + chr1.4:6794067-6794086 None:intergenic 40.0%
! ATTGTGAAGGTTTTTGTGGG+TGG + chr1.4:6794013-6794032 None:intergenic 40.0%
! TTTTTGCTTAGCATTGCTGC+TGG - chr1.4:6794249-6794268 MS.gene058419:CDS 40.0%
CAATGGTTTCAAGAAGGGTG+TGG + chr1.4:6794043-6794062 None:intergenic 45.0%
TTTGCTTGTGGAAAGGGCAA+TGG + chr1.4:6794060-6794079 None:intergenic 45.0%
! AAGGTTTTTGTGGGTGGCTT+GGG + chr1.4:6794007-6794026 None:intergenic 45.0%
!! GCTATATTGGGTGCTGTTGT+TGG - chr1.4:6794288-6794307 MS.gene058419:CDS 45.0%
TTGCTTAGCATTGCTGCTGG+TGG - chr1.4:6794252-6794271 MS.gene058419:CDS 50.0%
! GAAGGTTTTTGTGGGTGGCT+TGG + chr1.4:6794008-6794027 None:intergenic 50.0%
! GTGTGGTGGAAGGATTGTGA+AGG + chr1.4:6794026-6794045 None:intergenic 50.0%
! TGGTTTCAAGAAGGGTGTGG+TGG + chr1.4:6794040-6794059 None:intergenic 50.0%
! TTCAAGAAGGGTGTGGTGGA+AGG + chr1.4:6794036-6794055 None:intergenic 50.0%
CCAGATGTTGCTCATGCAGC+TGG - chr1.4:6794198-6794217 MS.gene058419:CDS 55.0%
CCAGCTGCATGAGCAACATC+TGG + chr1.4:6794201-6794220 None:intergenic 55.0%
! TTGTGGGTGGCTTGGGTTAG+TGG + chr1.4:6794000-6794019 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 6793967 6794344 6793967 ID=MS.gene058419
chr1.4 mRNA 6793967 6794344 6793967 ID=MS.gene058419.t1;Parent=MS.gene058419
chr1.4 exon 6793967 6794344 6793967 ID=MS.gene058419.t1.exon1;Parent=MS.gene058419.t1
chr1.4 CDS 6793967 6794344 6793967 ID=cds.MS.gene058419.t1;Parent=MS.gene058419.t1
Gene Sequence

>MS.gene058419

ATGGCTTCAGCTTCTGTTTCAATGTCTTTACCACTAACCCAAGCCACCCACAAAAACCTTCACAATCCTTCCACCACACCCTTCTTGAAACCATTGCCCTTTCCACAAGCAAAGAAGACACTAGTCAACAAGTCAACTTCAAAATCCAACCTTGTTGGAATTCAAGCATCATTGAAAGACAAAACAGTGAAGGGTCTAACAGCTTTTGCATTAACAGCCTCTATGGTGTTACCAGATGTTGCTCATGCAGCTGGAAATGATTTTTCACCATCTCTTAAAAACTTTTTGCTTAGCATTGCTGCTGGTGGTGTTGTTCTTACAGCTATATTGGGTGCTGTTGTTGGTGTTTCCAACTTTGATCCTGTTAAGAGAACTTAG

Protein sequence

>MS.gene058419.t1

MASASVSMSLPLTQATHKNLHNPSTTPFLKPLPFPQAKKTLVNKSTSKSNLVGIQASLKDKTVKGLTAFALTASMVLPDVAHAAGNDFSPSLKNFLLSIAAGGVVLTAILGAVVGVSNFDPVKRT