AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050972

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050972.t1 MTR_4g123670 78.378 37 8 0 28 64 476 512 2.44e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGATTTCATATAGATTTA+AGG 0.126167 8.1:+76443613 MS.gene050972:CDS
CACATGACTTCCCTTGTTTC+AGG 0.155190 8.1:-76442943 None:intergenic
CTATATGAAATCAAAGTTAT+AGG 0.321947 8.1:-76443605 None:intergenic
AAACTGCTTCACTTCACTAA+TGG 0.340507 8.1:+76442979 MS.gene050972:CDS
GAAACGGAAGAAGAATTTCT+TGG 0.371083 8.1:+76443248 MS.gene050972:CDS
TTTGACAGGTTTGAGTGTAT+TGG 0.406027 8.1:+76443406 MS.gene050972:intron
TTATACTTGAGAGTGAGGTT+TGG 0.466348 8.1:-76443463 None:intergenic
TAAAGATTAACCTCAATCTT+CGG 0.484357 8.1:-76443055 None:intergenic
GGATGAAGACGGCGAGGATG+AGG 0.496415 8.1:+76443014 MS.gene050972:CDS
AAATATTATACTTGAGAGTG+AGG 0.501284 8.1:-76443468 None:intergenic
CAGTGAATGTTCCGCCGACA+TGG 0.524982 8.1:+76442785 MS.gene050972:CDS
GGTTGAAGAATATGAAGAAA+CGG 0.528087 8.1:+76443232 MS.gene050972:CDS
CACTAATGGAGATGAAGTAT+AGG 0.529446 8.1:+76442993 MS.gene050972:CDS
TCGACGGACAGCAGAGAAGA+AGG 0.536093 8.1:+76442749 MS.gene050972:CDS
GATGATGACTCCGAAGATTG+AGG 0.575155 8.1:+76443045 MS.gene050972:CDS
ATTGAGCAACTCCTGAAACA+AGG 0.592296 8.1:+76442932 MS.gene050972:CDS
TTGAGCAACTCCTGAAACAA+GGG 0.592522 8.1:+76442933 MS.gene050972:CDS
TTGTTTAAATTAGGACTCTG+AGG 0.602642 8.1:+76443211 MS.gene050972:intron
AGTTATAGGATATGAATGCA+CGG 0.631860 8.1:-76443591 None:intergenic
AAACAGTTTATGATGGTCGA+CGG 0.640458 8.1:+76442733 None:intergenic
GATGAAGTATAGGATGAAGA+CGG 0.641794 8.1:+76443003 MS.gene050972:CDS
CTGAAACAAGGGAAGTCATG+TGG 0.662293 8.1:+76442944 MS.gene050972:CDS
AGTATAGGATGAAGACGGCG+AGG 0.703240 8.1:+76443008 MS.gene050972:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAATCTTAAAATTTATAT+TGG + chr8.1:76443337-76443356 MS.gene050972:intron 10.0%
!! CAATAAATAAATTAAAGTCA+TGG - chr8.1:76442880-76442899 None:intergenic 15.0%
!!! CATGACTTTAATTTATTTAT+TGG + chr8.1:76442878-76442897 MS.gene050972:intron 15.0%
!! CTATATGAAATCAAAGTTAT+AGG - chr8.1:76443608-76443627 None:intergenic 20.0%
!!! AATTTATATTGGTTGAAATG+AGG + chr8.1:76443348-76443367 MS.gene050972:intron 20.0%
!!! ATTTATATTGGTTGAAATGA+GGG + chr8.1:76443349-76443368 MS.gene050972:intron 20.0%
! AAATATTATACTTGAGAGTG+AGG - chr8.1:76443471-76443490 None:intergenic 25.0%
! TAAAGATTAACCTCAATCTT+CGG - chr8.1:76443058-76443077 None:intergenic 25.0%
!!! TATTGGTTGAATTTTAGTGA+TGG + chr8.1:76442895-76442914 MS.gene050972:intron 25.0%
!!! TTTTGAAACTATTTGAGTTG+TGG + chr8.1:76443291-76443310 MS.gene050972:intron 25.0%
AGTTATAGGATATGAATGCA+CGG - chr8.1:76443594-76443613 None:intergenic 30.0%
CCTAATTTAAACAAATCCAC+AGG - chr8.1:76443205-76443224 None:intergenic 30.0%
CTGAAAAACCAGAAGAAAAT+GGG - chr8.1:76443559-76443578 None:intergenic 30.0%
GGTTGAAGAATATGAAGAAA+CGG + chr8.1:76443232-76443251 MS.gene050972:CDS 30.0%
GTGAAAAAATTGAACCATGT+CGG - chr8.1:76442802-76442821 None:intergenic 30.0%
TGCACAAAATAGTGAATACA+TGG - chr8.1:76443501-76443520 None:intergenic 30.0%
TTCTTGGTATGATGCTATAT+GGG + chr8.1:76443264-76443283 MS.gene050972:intron 30.0%
TTGTTTAAATTAGGACTCTG+AGG + chr8.1:76443211-76443230 MS.gene050972:intron 30.0%
TTTAACAGTTCTTAATCCTG+TGG + chr8.1:76443186-76443205 MS.gene050972:intron 30.0%
TTTCTTGGTATGATGCTATA+TGG + chr8.1:76443263-76443282 MS.gene050972:intron 30.0%
! AATTATGTCCCATTTTCTTC+TGG + chr8.1:76443548-76443567 MS.gene050972:intron 30.0%
! CCTGTGGATTTGTTTAAATT+AGG + chr8.1:76443202-76443221 MS.gene050972:intron 30.0%
! TATATCTCCTTTTGTCTACA+AGG + chr8.1:76443120-76443139 MS.gene050972:intron 30.0%
AAAAAATTGAACCATGTCGG+CGG - chr8.1:76442799-76442818 None:intergenic 35.0%
AAACTGCTTCACTTCACTAA+TGG + chr8.1:76442979-76442998 MS.gene050972:CDS 35.0%
CACTAATGGAGATGAAGTAT+AGG + chr8.1:76442993-76443012 MS.gene050972:CDS 35.0%
CCTGAAAAACCAGAAGAAAA+TGG - chr8.1:76443560-76443579 None:intergenic 35.0%
GAAACGGAAGAAGAATTTCT+TGG + chr8.1:76443248-76443267 MS.gene050972:CDS 35.0%
GATGAAGTATAGGATGAAGA+CGG + chr8.1:76443003-76443022 MS.gene050972:CDS 35.0%
TGGGACATAATTCAGTCAAA+TGG - chr8.1:76443540-76443559 None:intergenic 35.0%
TTATACTTGAGAGTGAGGTT+TGG - chr8.1:76443466-76443485 None:intergenic 35.0%
TTTGACAGGTTTGAGTGTAT+TGG + chr8.1:76443406-76443425 MS.gene050972:intron 35.0%
!! TCATTGGATGTGATTTTGAC+AGG + chr8.1:76443392-76443411 MS.gene050972:intron 35.0%
!! TTGAATTTTAGTGATGGCAC+TGG + chr8.1:76442901-76442920 MS.gene050972:intron 35.0%
!!! CCATTTTCTTCTGGTTTTTC+AGG + chr8.1:76443557-76443576 MS.gene050972:intron 35.0%
ATGAGGGTAAAGCATAGCAT+AGG + chr8.1:76443365-76443384 MS.gene050972:intron 40.0%
ATTGAGCAACTCCTGAAACA+AGG + chr8.1:76442932-76442951 MS.gene050972:CDS 40.0%
CACAGAACCTTGTAGACAAA+AGG - chr8.1:76443130-76443149 None:intergenic 40.0%
TTGAGCAACTCCTGAAACAA+GGG + chr8.1:76442933-76442952 MS.gene050972:CDS 40.0%
CTGAAACAAGGGAAGTCATG+TGG + chr8.1:76442944-76442963 MS.gene050972:CDS 45.0%
GATGATGACTCCGAAGATTG+AGG + chr8.1:76443045-76443064 MS.gene050972:CDS 45.0%
GCATAGCATAGGAGCTTCAT+TGG + chr8.1:76443376-76443395 MS.gene050972:intron 45.0%
! CACATGACTTCCCTTGTTTC+AGG - chr8.1:76442946-76442965 None:intergenic 45.0%
AGTATAGGATGAAGACGGCG+AGG + chr8.1:76443008-76443027 MS.gene050972:CDS 50.0%
CAGTGAATGTTCCGCCGACA+TGG + chr8.1:76442785-76442804 MS.gene050972:CDS 55.0%
TCGACGGACAGCAGAGAAGA+AGG + chr8.1:76442749-76442768 MS.gene050972:CDS 55.0%
GGATGAAGACGGCGAGGATG+AGG + chr8.1:76443014-76443033 MS.gene050972:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 76442742 76443634 76442742 ID=MS.gene050972
chr8.1 mRNA 76442742 76443634 76442742 ID=MS.gene050972.t1;Parent=MS.gene050972
chr8.1 exon 76442742 76442823 76442742 ID=MS.gene050972.t1.exon1;Parent=MS.gene050972.t1
chr8.1 CDS 76442742 76442823 76442742 ID=cds.MS.gene050972.t1;Parent=MS.gene050972.t1
chr8.1 exon 76442912 76443066 76442912 ID=MS.gene050972.t1.exon2;Parent=MS.gene050972.t1
chr8.1 CDS 76442912 76443066 76442912 ID=cds.MS.gene050972.t1;Parent=MS.gene050972.t1
chr8.1 exon 76443224 76443269 76443224 ID=MS.gene050972.t1.exon3;Parent=MS.gene050972.t1
chr8.1 CDS 76443224 76443269 76443224 ID=cds.MS.gene050972.t1;Parent=MS.gene050972.t1
chr8.1 exon 76443414 76443479 76443414 ID=MS.gene050972.t1.exon4;Parent=MS.gene050972.t1
chr8.1 CDS 76443414 76443479 76443414 ID=cds.MS.gene050972.t1;Parent=MS.gene050972.t1
chr8.1 exon 76443579 76443634 76443579 ID=MS.gene050972.t1.exon5;Parent=MS.gene050972.t1
chr8.1 CDS 76443579 76443634 76443579 ID=cds.MS.gene050972.t1;Parent=MS.gene050972.t1
Gene Sequence

>MS.gene050972

ATGATGGTCGACGGACAGCAGAGAAGAAGGATGATGATTGCAACAGTGAATGTTCCGCCGACATGGTTCAATTTTTTCACATGTAATATTTACATTCATTACTAATACATCAGTTGAATCTGTTTTTTTAACAAACCATGACTTTAATTTATTTATTGGTTGAATTTTAGTGATGGCACTGGCTCGATTGATTGAGCAACTCCTGAAACAAGGGAAGTCATGTGGTGATTCAATTCAAAACTGCTTCACTTCACTAATGGAGATGAAGTATAGGATGAAGACGGCGAGGATGAGGATAGTGACGATGATGACTCCGAAGATTGAGGTTAATCTTTACTGTTTCTTCATGTATATCAGTTTTTAGTGTTTTCGTAGACTTATATCTCCTTTTGTCTACAAGGTTCTGTGATTAACATGTTCTCTTGCTGACTATGTTTATTAATATTTAACAGTTCTTAATCCTGTGGATTTGTTTAAATTAGGACTCTGAGGTTGAAGAATATGAAGAAACGGAAGAAGAATTTCTTGGTATGATGCTATATGGGATGCTTTTGAAACTATTTGAGTTGTGGCTAAATTGCATATTTTTTTCTTCTCAAATCTTAAAATTTATATTGGTTGAAATGAGGGTAAAGCATAGCATAGGAGCTTCATTGGATGTGATTTTGACAGGTTTGAGTGTATTGGAGCAGCTGAATACATCAAGCATTTGTATCAAATTCCAAACCTCACTCTCAAGTATAATATTTTTATCTTCCATGTATTCACTATTTTGTGCATTCAAGTCATATCATGCCATTTGACTGAATTATGTCCCATTTTCTTCTGGTTTTTCAGGTTGTCGCTTATCCGTGCATTCATATCCTATAACTTTGATTTCATATAGATTTAAG
Protein sequence

>MS.gene050972.t1

MMVDGQQRRRMMIATVNVPPTWFNFFTLMALARLIEQLLKQGKSCGDSIQNCFTSLMEMKYRMKTARMRIVTMMTPKIEDSEVEEYEETEEEFLGLSVLEQLNTSSICIKFQTSLSSCRLSVHSYPITLISYRFK