AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071712

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071712.t1 MTR_7g083360 57.931 145 58 3 1 144 1 143 5.49e-46 147
MS.gene071712.t1 MTR_7g083370 50.000 144 55 3 1 136 1 135 2.33e-36 122
MS.gene071712.t1 MTR_7g083330 43.750 144 66 3 3 139 11 146 2.58e-24 93.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 34 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATCTACCTGCTGGATTC+AGG 0.237662 7.2:+23946251 MS.gene071712:CDS
TGCAGAAAATATATACTCTT+TGG 0.261957 7.2:+23946681 MS.gene071712:intron
GAACCGTAGGTTCGAGAATA+TGG 0.296257 7.2:+23946735 MS.gene071712:CDS
TCAAATTCTGACATGACATT+TGG 0.343033 7.2:-23946342 None:intergenic
ATTGTATTCCTTACCCTAGT+TGG 0.360957 7.2:-23946938 None:intergenic
GAAAGAACAGATATGTTTAC+TGG 0.378161 7.2:+23946843 MS.gene071712:CDS
ATATATACTCTTTGGAGAAT+AGG 0.391125 7.2:+23946689 MS.gene071712:CDS
AGTACTATTTCTTTGATCTC+AGG 0.411387 7.2:+23946713 MS.gene071712:CDS
ATGCAAGAAGAGCTGGAAAA+TGG 0.460510 7.2:+23946758 MS.gene071712:CDS
ACAGATATGTTTACTGGATA+GGG 0.475339 7.2:+23946849 MS.gene071712:CDS
TCTGACATGACATTTGGAAA+AGG 0.488494 7.2:-23946336 None:intergenic
ACTGAGCCATGGAGGCTGCC+AGG 0.492712 7.2:+23946375 MS.gene071712:CDS
AACAGATATGTTTACTGGAT+AGG 0.498598 7.2:+23946848 MS.gene071712:CDS
TCAACAAGTACGCGATCGGT+TGG 0.506848 7.2:-23946280 None:intergenic
AAACCTCCTGGCAGCCTCCA+TGG 0.506870 7.2:-23946381 None:intergenic
GCTGAGGTTGATCTACCTGC+TGG 0.528162 7.2:+23946244 MS.gene071712:CDS
AATATGGATGCAAGAAGAGC+TGG 0.531324 7.2:+23946751 MS.gene071712:CDS
ATATATTTCAAACTGAGCCA+TGG 0.550284 7.2:+23946364 MS.gene071712:CDS
TTCAAGCTCTGATGACAAGA+TGG 0.554439 7.2:+23946879 MS.gene071712:CDS
ACATGACATTTGGAAAAGGT+TGG 0.561346 7.2:-23946332 None:intergenic
CATCCATATTCTCGAACCTA+CGG 0.563017 7.2:-23946738 None:intergenic
GTAGAATTTCTGATCCAACT+AGG 0.564430 7.2:+23946924 MS.gene071712:CDS
TCTTTGATCTCAGGAACCGT+AGG 0.573721 7.2:+23946722 MS.gene071712:CDS
AAGAGCTGGAAAATGGTGAA+TGG 0.577975 7.2:+23946765 MS.gene071712:CDS
GGATCAAACCTGAATCCAGC+AGG 0.578674 7.2:-23946259 None:intergenic
TAGAATTTCTGATCCAACTA+GGG 0.584601 7.2:+23946925 MS.gene071712:CDS
GCGAATAGTTCAAAGGAATG+AGG 0.587265 7.2:+23946787 MS.gene071712:CDS
GTGAATGGCGAATAGTTCAA+AGG 0.604587 7.2:+23946780 MS.gene071712:CDS
GCACTCAACAAGTACGCGAT+CGG 0.627245 7.2:-23946284 None:intergenic
AAGCTCTGATGACAAGATGG+TGG 0.668891 7.2:+23946882 MS.gene071712:CDS
TATTTCAAACTGAGCCATGG+AGG 0.675314 7.2:+23946367 MS.gene071712:CDS
GAGCCATGGAGGCTGCCAGG+AGG 0.693460 7.2:+23946378 MS.gene071712:CDS
CATGGCGGTAGCTAATGCTG+AGG 0.695855 7.2:+23946228 None:intergenic
TGGATGCATGAATTTGTCAT+CGG 0.708626 7.2:+23946902 MS.gene071712:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACAAATTGATTTATTCATTT+TGG + chr7.2:23946629-23946648 MS.gene071712:intron 15.0%
!!! CAAATTGATTTATTCATTTT+GGG + chr7.2:23946630-23946649 MS.gene071712:intron 15.0%
!! TCATAAAGAAAGAGAATAAA+GGG - chr7.2:23946447-23946466 None:intergenic 20.0%
!! TTTATTGATAAAACACACAA+TGG - chr7.2:23946470-23946489 None:intergenic 20.0%
! AACATCATATAAGCATTTCA+TGG - chr7.2:23946592-23946611 None:intergenic 25.0%
! GTCATAAAGAAAGAGAATAA+AGG - chr7.2:23946448-23946467 None:intergenic 25.0%
! TGCAGAAAATATATACTCTT+TGG + chr7.2:23946681-23946700 MS.gene071712:intron 25.0%
!! ATATATACTCTTTGGAGAAT+AGG + chr7.2:23946689-23946708 MS.gene071712:CDS 25.0%
!! ATTTTCTTAGTGTTCTTTGA+TGG + chr7.2:23946496-23946515 MS.gene071712:intron 25.0%
!! TTGTATATTTTTCTTTCGTC+AGG - chr7.2:23946312-23946331 None:intergenic 25.0%
!!! GCTTATATGATGTTTTTATG+TGG + chr7.2:23946598-23946617 MS.gene071712:intron 25.0%
AACAGATATGTTTACTGGAT+AGG + chr7.2:23946848-23946867 MS.gene071712:CDS 30.0%
ACAGATATGTTTACTGGATA+GGG + chr7.2:23946849-23946868 MS.gene071712:CDS 30.0%
ATATATTTCAAACTGAGCCA+TGG + chr7.2:23946364-23946383 MS.gene071712:CDS 30.0%
GAAAGAACAGATATGTTTAC+TGG + chr7.2:23946843-23946862 MS.gene071712:CDS 30.0%
TCAAATTCTGACATGACATT+TGG - chr7.2:23946345-23946364 None:intergenic 30.0%
! AGTACTATTTCTTTGATCTC+AGG + chr7.2:23946713-23946732 MS.gene071712:CDS 30.0%
ACATGACATTTGGAAAAGGT+TGG - chr7.2:23946335-23946354 None:intergenic 35.0%
GTAGAATTTCTGATCCAACT+AGG + chr7.2:23946924-23946943 MS.gene071712:CDS 35.0%
TCTGACATGACATTTGGAAA+AGG - chr7.2:23946339-23946358 None:intergenic 35.0%
TGGATGCATGAATTTGTCAT+CGG + chr7.2:23946902-23946921 MS.gene071712:CDS 35.0%
TTGTGTCTTAGACATGCAAT+TGG + chr7.2:23946545-23946564 MS.gene071712:intron 35.0%
AAGAGCTGGAAAATGGTGAA+TGG + chr7.2:23946765-23946784 MS.gene071712:CDS 40.0%
AATATGGATGCAAGAAGAGC+TGG + chr7.2:23946751-23946770 MS.gene071712:CDS 40.0%
ATGCAAGAAGAGCTGGAAAA+TGG + chr7.2:23946758-23946777 MS.gene071712:CDS 40.0%
CATCCATATTCTCGAACCTA+CGG - chr7.2:23946741-23946760 None:intergenic 40.0%
GCGAATAGTTCAAAGGAATG+AGG + chr7.2:23946787-23946806 MS.gene071712:CDS 40.0%
GTCTTAGACATGCAATTGGA+GGG + chr7.2:23946549-23946568 MS.gene071712:intron 40.0%
GTGAATGGCGAATAGTTCAA+AGG + chr7.2:23946780-23946799 MS.gene071712:CDS 40.0%
TATTTCAAACTGAGCCATGG+AGG + chr7.2:23946367-23946386 MS.gene071712:CDS 40.0%
TCTTAGACATGCAATTGGAG+GGG + chr7.2:23946550-23946569 MS.gene071712:intron 40.0%
TGTCTTAGACATGCAATTGG+AGG + chr7.2:23946548-23946567 MS.gene071712:intron 40.0%
! GTTTTCTTTCACAAACCTCC+TGG - chr7.2:23946396-23946415 None:intergenic 40.0%
! TTCAAGCTCTGATGACAAGA+TGG + chr7.2:23946879-23946898 MS.gene071712:CDS 40.0%
GAACCGTAGGTTCGAGAATA+TGG + chr7.2:23946735-23946754 MS.gene071712:CDS 45.0%
TCTTTGATCTCAGGAACCGT+AGG + chr7.2:23946722-23946741 MS.gene071712:CDS 45.0%
TTGATCTACCTGCTGGATTC+AGG + chr7.2:23946251-23946270 MS.gene071712:CDS 45.0%
! AAGCTCTGATGACAAGATGG+TGG + chr7.2:23946882-23946901 MS.gene071712:CDS 45.0%
GCACTCAACAAGTACGCGAT+CGG - chr7.2:23946287-23946306 None:intergenic 50.0%
GGATCAAACCTGAATCCAGC+AGG - chr7.2:23946262-23946281 None:intergenic 50.0%
TAGACATGCAATTGGAGGGG+AGG + chr7.2:23946553-23946572 MS.gene071712:intron 50.0%
TCAACAAGTACGCGATCGGT+TGG - chr7.2:23946283-23946302 None:intergenic 50.0%
! GCTGAGGTTGATCTACCTGC+TGG + chr7.2:23946244-23946263 MS.gene071712:CDS 55.0%
AAACCTCCTGGCAGCCTCCA+TGG - chr7.2:23946384-23946403 None:intergenic 60.0%
ACTGAGCCATGGAGGCTGCC+AGG + chr7.2:23946375-23946394 MS.gene071712:CDS 65.0%
GAGCCATGGAGGCTGCCAGG+AGG + chr7.2:23946378-23946397 MS.gene071712:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 23946229 23946946 23946229 ID=MS.gene071712
chr7.2 mRNA 23946229 23946946 23946229 ID=MS.gene071712.t1;Parent=MS.gene071712
chr7.2 exon 23946229 23946399 23946229 ID=MS.gene071712.t1.exon1;Parent=MS.gene071712.t1
chr7.2 CDS 23946229 23946399 23946229 ID=cds.MS.gene071712.t1;Parent=MS.gene071712.t1
chr7.2 exon 23946686 23946946 23946686 ID=MS.gene071712.t1.exon2;Parent=MS.gene071712.t1
chr7.2 CDS 23946686 23946946 23946686 ID=cds.MS.gene071712.t1;Parent=MS.gene071712.t1
Gene Sequence

>MS.gene071712

ATGGCGGTAGCTAATGCTGAGGTTGATCTACCTGCTGGATTCAGGTTTGATCCAACCGATCGCGTACTTGTTGAGTGCTACCTGACGAAAGAAAAATATACAACCAACCTTTTCCAAATGTCATGTCAGAATTTGATATATTTCAAACTGAGCCATGGAGGCTGCCAGGAGGTTTGTGAAAGAAAACAAAAGTTATTTTCTAATGTTTTTTTTAGCCCTTTATTCTCTTTCTTTATGACCATTGTGTGTTTTATCAATAAAAATCAAATTTTCTTAGTGTTCTTTGATGGATTTTCATTGATCTTGAGAATGAACGTTGTGTCTTAGACATGCAATTGGAGGGGAGGAGACTTAAAAATTCCATGAAATGCTTATATGATGTTTTTATGTGGTAATTAACACAAATTGATTTATTCATTTTGGGTCATTTCAATTTGTTATTTTTTTTTTGTTGCAGAAAATATATACTCTTTGGAGAATAGGAAGTACTATTTCTTTGATCTCAGGAACCGTAGGTTCGAGAATATGGATGCAAGAAGAGCTGGAAAATGGTGAATGGCGAATAGTTCAAAGGAATGAGGAGTTTGCTCATTCAAACAATCAACTGATTGTGAGAAAGAACAGATATGTTTACTGGATAGGGCAAGAAATTCAAGCTCTGATGACAAGATGGTGGATGCATGAATTTGTCATCGGTAGAATTTCTGATCCAACTAGG
Protein sequence

>MS.gene071712.t1

MAVANAEVDLPAGFRFDPTDRVLVECYLTKEKYTTNLFQMSCQNLIYFKLSHGGCQEKIYTLWRIGSTISLISGTVGSRIWMQEELENGEWRIVQRNEEFAHSNNQLIVRKNRYVYWIGQEIQALMTRWWMHEFVIGRISDPTR