AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000467.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000467.01.T02 MTR_1g015290 89.130 92 10 0 1 92 8 99 1.67e-53 164
MsG0180000467.01.T02 MTR_3g104950 50.549 91 40 2 2 92 9 94 1.27e-21 83.2
MsG0180000467.01.T02 MTR_2g041260 42.857 77 41 1 1 77 9 82 1.02e-11 57.8
MsG0180000467.01.T01 MTR_1g015290 89.899 99 10 0 1 99 1 99 6.70e-58 175
MsG0180000467.01.T01 MTR_3g104950 51.000 100 44 2 1 100 1 95 1.39e-24 90.9
MsG0180000467.01.T01 MTR_2g041260 45.882 85 42 2 1 84 1 82 2.78e-13 62.0
MsG0180000467.01.T01 MTR_4g125600 46.078 102 43 6 1 100 1 92 5.87e-12 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000467.01.T02 AT2G06520 40.000 80 46 2 13 92 13 90 3.74e-11 56.2
MsG0180000467.01.T01 AT2G06520 40.000 80 46 2 20 99 13 90 4.29e-11 56.2

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:+6477425 None:intergenic
TTTAACTAAGTTCTCTTAAC+AGG 0.285839 1:+6477096 None:intergenic
TGTTGTTCTTACAGCTATAT+TGG 0.300493 1:-6477148 MsG0180000467.01.T01:CDS
GTTGTTCTTACAGCTATATT+GGG 0.346937 1:-6477147 MsG0180000467.01.T01:CDS
GTCTTCTTTGCTTGTGGAAA+GGG 0.349407 1:+6477359 None:intergenic
GCTATATTGGGTGCTGTTGT+TGG 0.379016 1:-6477135 MsG0180000467.01.T01:CDS
ACTTCAAAATCCAACCTTGT+TGG 0.385727 1:-6477320 MsG0180000467.01.T01:CDS
ACTAGTGTCTTCTTTGCTTG+TGG 0.430477 1:+6477353 None:intergenic
CCAGATGTTGCTCATGCAGC+TGG 0.445643 1:-6477224 MsG0180000467.01.T01:CDS
TGTCTTCTTTGCTTGTGGAA+AGG 0.459779 1:+6477358 None:intergenic
TTTGCTTGTGGAAAGGGCAA+TGG 0.463285 1:+6477365 None:intergenic
TCTCTTAACAGGATCAAAGT+TGG 0.467747 1:+6477107 None:intergenic
TGCTTGAATTCCAACAAGGT+TGG 0.477724 1:+6477310 None:intergenic
TTCAAGAAGGGTGTGGTGGA+AGG 0.483812 1:+6477389 None:intergenic
CCAGCTGCATGAGCAACATC+TGG 0.490868 1:+6477224 None:intergenic
TTGCTTAGCATTGCTGCTGG+TGG 0.565122 1:-6477171 MsG0180000467.01.T01:CDS
ATTGAAAGACAAAACAGTGA+AGG 0.569072 1:-6477285 MsG0180000467.01.T01:CDS
TTGAAAGACAAAACAGTGAA+GGG 0.580339 1:-6477284 MsG0180000467.01.T01:CDS
AAGGGCAATGGTTTCAAGAA+GGG 0.584655 1:+6477377 None:intergenic
AAAGGGCAATGGTTTCAAGA+AGG 0.598373 1:+6477376 None:intergenic
CAATGGTTTCAAGAAGGGTG+TGG 0.606722 1:+6477382 None:intergenic
TGGTTTCAAGAAGGGTGTGG+TGG 0.610036 1:+6477385 None:intergenic
GTGTGGTGGAAGGATTGTGA+AGG 0.617280 1:+6477399 None:intergenic
AACATCTGGTAACACCATAG+AGG 0.635135 1:+6477238 None:intergenic
ATGATGCTTGAATTCCAACA+AGG 0.644146 1:+6477306 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGCAAAAAGTTTTTAAGAGA+TGG + Chr1:6477366-6477385 None:intergenic 25.0%
ATTGAAAGACAAAACAGTGA+AGG - Chr1:6477267-6477286 MsG0180000467.01.T01:CDS 30.0%
GTTGTTCTTACAGCTATATT+GGG - Chr1:6477405-6477424 MsG0180000467.01.T01:CDS 30.0%
TGTTGTTCTTACAGCTATAT+TGG - Chr1:6477404-6477423 MsG0180000467.01.T01:CDS 30.0%
TTGAAAGACAAAACAGTGAA+GGG - Chr1:6477268-6477287 MsG0180000467.01.T01:CDS 30.0%
ACTTCAAAATCCAACCTTGT+TGG - Chr1:6477232-6477251 MsG0180000467.01.T01:CDS 35.0%
ATGATGCTTGAATTCCAACA+AGG + Chr1:6477249-6477268 None:intergenic 35.0%
TCTCTTAACAGGATCAAAGT+TGG + Chr1:6477448-6477467 None:intergenic 35.0%
! AAGGATTGTGAAGGTTTTTG+TGG + Chr1:6477147-6477166 None:intergenic 35.0%
! AGGATTGTGAAGGTTTTTGT+GGG + Chr1:6477146-6477165 None:intergenic 35.0%
AAAGGGCAATGGTTTCAAGA+AGG + Chr1:6477179-6477198 None:intergenic 40.0%
AACATCTGGTAACACCATAG+AGG + Chr1:6477317-6477336 None:intergenic 40.0%
AAGGGCAATGGTTTCAAGAA+GGG + Chr1:6477178-6477197 None:intergenic 40.0%
ACTAGTGTCTTCTTTGCTTG+TGG + Chr1:6477202-6477221 None:intergenic 40.0%
GTCTTCTTTGCTTGTGGAAA+GGG + Chr1:6477196-6477215 None:intergenic 40.0%
TGCTTGAATTCCAACAAGGT+TGG + Chr1:6477245-6477264 None:intergenic 40.0%
TGTCTTCTTTGCTTGTGGAA+AGG + Chr1:6477197-6477216 None:intergenic 40.0%
! ATTGTGAAGGTTTTTGTGGG+TGG + Chr1:6477143-6477162 None:intergenic 40.0%
! TTTTGCGTTAACAGCCTCTA+TGG - Chr1:6477300-6477319 MsG0180000467.01.T01:CDS 40.0%
! TTTTTGCTTAGCATTGCTGC+TGG - Chr1:6477378-6477397 MsG0180000467.01.T01:CDS 40.0%
CAATGGTTTCAAGAAGGGTG+TGG + Chr1:6477173-6477192 None:intergenic 45.0%
TTTGCTTGTGGAAAGGGCAA+TGG + Chr1:6477190-6477209 None:intergenic 45.0%
! AAGGTTTTTGTGGGTGGCTT+GGG + Chr1:6477137-6477156 None:intergenic 45.0%
!! GCTATATTGGGTGCTGTTGT+TGG - Chr1:6477417-6477436 MsG0180000467.01.T01:CDS 45.0%
TTGCTTAGCATTGCTGCTGG+TGG - Chr1:6477381-6477400 MsG0180000467.01.T01:CDS 50.0%
! GAAGGTTTTTGTGGGTGGCT+TGG + Chr1:6477138-6477157 None:intergenic 50.0%
! GTGTGGTGGAAGGATTGTGA+AGG + Chr1:6477156-6477175 None:intergenic 50.0%
! TGGTTTCAAGAAGGGTGTGG+TGG + Chr1:6477170-6477189 None:intergenic 50.0%
! TTCAAGAAGGGTGTGGTGGA+AGG + Chr1:6477166-6477185 None:intergenic 50.0%
CCAGATGTTGCTCATGCAGC+TGG - Chr1:6477328-6477347 MsG0180000467.01.T01:CDS 55.0%
CCAGCTGCATGAGCAACATC+TGG + Chr1:6477331-6477350 None:intergenic 55.0%
! TTGTGGGTGGCTTGGGTTAG+TGG + Chr1:6477130-6477149 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 6477097 6477477 6477097 ID=MsG0180000467.01;Name=MsG0180000467.01
Chr1 mRNA 6477097 6477477 6477097 ID=MsG0180000467.01.T01;Parent=MsG0180000467.01;Name=MsG0180000467.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|126
Chr1 exon 6477097 6477477 6477097 ID=MsG0180000467.01.T01:exon:2519;Parent=MsG0180000467.01.T01
Chr1 CDS 6477097 6477477 6477097 ID=MsG0180000467.01.T01:cds;Parent=MsG0180000467.01.T01
Chr1 mRNA 6477097 6477456 6477097 ID=MsG0180000467.01.T02;Parent=MsG0180000467.01;Name=MsG0180000467.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|119
Chr1 exon 6477097 6477456 6477097 ID=MsG0180000467.01.T02:exon:2520;Parent=MsG0180000467.01.T02
Chr1 CDS 6477097 6477456 6477097 ID=MsG0180000467.01.T02:cds;Parent=MsG0180000467.01.T02
Gene Sequence

>MsG0180000467.01.T02

ATGTCTTTACCACTAACCCAAGCCACCCACAAAAACCTTCACAATCCTTCCACCACACCCTTCTTGAAACCATTGCCCTTTCCACAAGCAAAGAAGACACTAGTCAACAAGTCAACTTCAAAATCCAACCTTGTTGGAATTCAAGCATCATTGAAAGACAAAACAGTGAAGGGTCTAACAGCTTTTGCGTTAACAGCCTCTATGGTGTTACCAGATGTTGCTCATGCAGCTGGAAATGATTTTCACCATCTCTTAAAAACTTTTTGCTTAGCATTGCTGCTGGTGGTGTTGTTCTTACAGCTATATTGGGTGCTGTTGTTGGTGTTTCCAACTTTGATCCTGTTAAGAGAACTTAGTTAA

>MsG0180000467.01.T01

ATGGCTTCAGCTTCTGTTTCAATGTCTTTACCACTAACCCAAGCCACCCACAAAAACCTTCACAATCCTTCCACCACACCCTTCTTGAAACCATTGCCCTTTCCACAAGCAAAGAAGACACTAGTCAACAAGTCAACTTCAAAATCCAACCTTGTTGGAATTCAAGCATCATTGAAAGACAAAACAGTGAAGGGTCTAACAGCTTTTGCGTTAACAGCCTCTATGGTGTTACCAGATGTTGCTCATGCAGCTGGAAATGATTTTCACCATCTCTTAAAAACTTTTTGCTTAGCATTGCTGCTGGTGGTGTTGTTCTTACAGCTATATTGGGTGCTGTTGTTGGTGTTTCCAACTTTGATCCTGTTAAGAGAACTTAGTTAA

Protein sequence

>MsG0180000467.01.T02

MSLPLTQATHKNLHNPSTTPFLKPLPFPQAKKTLVNKSTSKSNLVGIQASLKDKTVKGLTAFALTASMVLPDVAHAAGNDFHHLLKTFCLALLLVVLFLQLYWVLLLVFPTLILLRELS*

>MsG0180000467.01.T01

MASASVSMSLPLTQATHKNLHNPSTTPFLKPLPFPQAKKTLVNKSTSKSNLVGIQASLKDKTVKGLTAFALTASMVLPDVAHAAGNDFHHLLKTFCLALLLVVLFLQLYWVLLLVFPTLILLRELS*