AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57110

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57110.t1 AT3G01410 51.538 130 63 0 15 144 154 283 4.01e-43 144
MS.gene57110.t1 AT3G01410 51.538 130 63 0 15 144 154 283 4.01e-43 144
MS.gene57110.t1 AT5G51080 47.727 132 69 0 14 145 121 252 1.45e-38 131
MS.gene57110.t1 AT5G51080 48.092 131 68 0 15 145 185 315 1.02e-37 130
MS.gene57110.t1 AT5G51080 48.092 131 68 0 15 145 185 315 1.02e-37 130
MS.gene57110.t1 AT1G24090 50.000 134 67 0 11 144 212 345 8.16e-37 129

Find 40 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATCTACAATGCAAATTTA+TGG 0.208454 6.2:+3836872 MS.gene57110:CDS
GCTATACTGCGATCGGAAAA+TGG 0.245683 6.2:+3836497 MS.gene57110:CDS
TCTTGTATCGTTGAGTTTGA+TGG 0.250331 6.2:+3836437 MS.gene57110:CDS
ATATAATGAAGTTATTTATA+CGG 0.306987 6.2:+3835549 MS.gene57110:CDS
CTCTCAGCTGGTTGTCAACC+AGG 0.361259 6.2:+3836733 MS.gene57110:CDS
ATGAAACAAGCCATCCAAAA+AGG 0.370537 6.2:+3836683 MS.gene57110:CDS
TTGGATTTGCAACAGTTTAC+GGG 0.373243 6.2:+3836841 MS.gene57110:intron
GGCGCATCCCGTGGAAATCC+TGG 0.383095 6.2:+3836458 MS.gene57110:CDS
GAGCTTATGTAACGAGGCTT+TGG 0.384951 6.2:+3836894 MS.gene57110:CDS
ACTCAGCTACATTATTTGTT+TGG 0.387567 6.2:-3836640 None:intergenic
TATCGATTCCGTGAAGGATT+AGG 0.418679 6.2:+3836614 MS.gene57110:CDS
TAAATACCCTGCGAATGTAT+TGG 0.430599 6.2:-3836948 None:intergenic
CTATACTGCGATCGGAAAAT+GGG 0.453191 6.2:+3836498 MS.gene57110:CDS
CGTGGAAATCCTGGACCAGC+TGG 0.470461 6.2:+3836467 MS.gene57110:CDS
GCTCCTGCTCCAGCTGGTCC+AGG 0.477291 6.2:-3836476 None:intergenic
TTTGGTAGCCTAATCCTTCA+CGG 0.484089 6.2:-3836622 None:intergenic
AGCTGATGCTCAAGCAAACC+AGG 0.491519 6.2:+3837136 MS.gene57110:CDS
ATCATCACATCGCTATCAAA+GGG 0.492142 6.2:+3836708 MS.gene57110:CDS
TATCAAAGGGGACTCTCAGC+TGG 0.494450 6.2:+3836721 MS.gene57110:CDS
GCAAACCAGGCCGTCTATCT+CGG 0.501891 6.2:+3837149 MS.gene57110:CDS
GCACCATCCAATACATTCGC+AGG 0.512350 6.2:+3836941 MS.gene57110:CDS
AATCCTGGACCAGCTGGAGC+AGG 0.519905 6.2:+3836473 MS.gene57110:CDS
AGTATAGCTCCTGCTCCAGC+TGG 0.520003 6.2:-3836482 None:intergenic
GTCCAGATGCAGCATTATGT+TGG 0.532604 6.2:+3835526 None:intergenic
AACCTCCGAGATAGACGGCC+TGG 0.536346 6.2:-3837154 None:intergenic
TATCATCACATCGCTATCAA+AGG 0.541952 6.2:+3836707 MS.gene57110:CDS
TAACGAGGCTTTGGAGCTGA+AGG 0.547906 6.2:+3836903 MS.gene57110:CDS
AGCAGGAGCTATACTGCGAT+CGG 0.556394 6.2:+3836490 MS.gene57110:CDS
CAGCTGGTCCAGGATTTCCA+CGG 0.572500 6.2:-3836466 None:intergenic
GAGTTTGATGGCGCATCCCG+TGG 0.575559 6.2:+3836449 MS.gene57110:CDS
AGCTGGTCCAGGATTTCCAC+GGG 0.575672 6.2:-3836465 None:intergenic
TAGCTCTATCGATTCCGTGA+AGG 0.602182 6.2:+3836608 MS.gene57110:intron
GGTCTAACCTCCGAGATAGA+CGG 0.619003 6.2:-3837159 None:intergenic
AACGAGGCTTTGGAGCTGAA+GGG 0.620144 6.2:+3836904 MS.gene57110:CDS
CACCATCCAATACATTCGCA+GGG 0.625145 6.2:+3836942 MS.gene57110:CDS
GCGATCGGAAAATGGGAATG+TGG 0.647786 6.2:+3836505 MS.gene57110:CDS
TTTATGGAGCTTATGTAACG+AGG 0.654358 6.2:+3836888 MS.gene57110:CDS
TACCCTGCGAATGTATTGGA+TGG 0.689775 6.2:-3836944 None:intergenic
AACCAGGCCGTCTATCTCGG+AGG 0.697455 6.2:+3837152 MS.gene57110:CDS
TCATCACATCGCTATCAAAG+GGG 0.699297 6.2:+3836709 MS.gene57110:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATAATGAAGTTATTTATA+CGG + chr6.2:3835549-3835568 MS.gene57110:CDS 10.0%
!! AAACTTTATAATATGATTTC+TGG - chr6.2:3836243-3836262 None:intergenic 15.0%
!! AATATACTTACATATGTTAT+TGG + chr6.2:3836822-3836841 MS.gene57110:intron 15.0%
!! TACAATGAGATAAATATATA+AGG - chr6.2:3837067-3837086 None:intergenic 15.0%
!! TCTACAATTTATAACATATA+CGG - chr6.2:3835898-3835917 None:intergenic 15.0%
!!! AATCTATCTTTAATTTATTC+AGG - chr6.2:3835785-3835804 None:intergenic 15.0%
!! TTCAAATAAATCCATACTAT+AGG - chr6.2:3836091-3836110 None:intergenic 20.0%
!!! ATACTTAGATGTTAACTTTT+TGG + chr6.2:3836303-3836322 MS.gene57110:intron 20.0%
!!! TTTTCCTTTGTAATTGTTTA+AGG + chr6.2:3837100-3837119 MS.gene57110:intron 20.0%
! AAAGATCTTAACCTATAGTA+TGG + chr6.2:3836077-3836096 MS.gene57110:intron 25.0%
! ACATCTACAATGCAAATTTA+TGG + chr6.2:3836872-3836891 MS.gene57110:CDS 25.0%
! AGTTCCTTAAACAATTACAA+AGG - chr6.2:3837107-3837126 None:intergenic 25.0%
! TGTGAAATTAGTCATACAAA+GGG - chr6.2:3835858-3835877 None:intergenic 25.0%
!! TAAGGAGTTGTATTCTAAAA+TGG - chr6.2:3837049-3837068 None:intergenic 25.0%
!!! ACTAATTTCACACCATTTTT+AGG + chr6.2:3835866-3835885 MS.gene57110:intron 25.0%
!!! GATCTTTTAAGTCAAATCAA+TGG + chr6.2:3835946-3835965 MS.gene57110:intron 25.0%
AAGAGAATTGTTCAACTTAG+AGG - chr6.2:3835732-3835751 None:intergenic 30.0%
ACTCAGCTACATTATTTGTT+TGG - chr6.2:3836643-3836662 None:intergenic 30.0%
AGAGAATTGTTCAACTTAGA+GGG - chr6.2:3835731-3835750 None:intergenic 30.0%
AGCATATAATAGAACAAACC+TGG - chr6.2:3836754-3836773 None:intergenic 30.0%
ATACGGTATTTCAAATCAGA+TGG + chr6.2:3835566-3835585 MS.gene57110:intron 30.0%
ATTGGATTTGCAACAGTTTA+CGG + chr6.2:3836840-3836859 MS.gene57110:intron 30.0%
GATGAATTGTTGAGTAAAGT+TGG - chr6.2:3836533-3836552 None:intergenic 30.0%
GTGTGAAATTAGTCATACAA+AGG - chr6.2:3835859-3835878 None:intergenic 30.0%
TTATTAACCTTTGCTTTGCA+TGG + chr6.2:3835698-3835717 MS.gene57110:intron 30.0%
! AAAAACAGGTGACTTGATTT+TGG + chr6.2:3836125-3836144 MS.gene57110:intron 30.0%
! AAAATCAAGTCACCTGTTTT+TGG - chr6.2:3836126-3836145 None:intergenic 30.0%
AGAAACTCAACACCAAAAAC+AGG + chr6.2:3836111-3836130 MS.gene57110:intron 35.0%
ATCATCACATCGCTATCAAA+GGG + chr6.2:3836708-3836727 MS.gene57110:CDS 35.0%
ATGAAACAAGCCATCCAAAA+AGG + chr6.2:3836683-3836702 MS.gene57110:CDS 35.0%
ATGCAGTGAATCTTATGTCA+CGG - chr6.2:3836187-3836206 None:intergenic 35.0%
GAGAATTGTTCAACTTAGAG+GGG - chr6.2:3835730-3835749 None:intergenic 35.0%
TAAATACCCTGCGAATGTAT+TGG - chr6.2:3836951-3836970 None:intergenic 35.0%
TATCATCACATCGCTATCAA+AGG + chr6.2:3836707-3836726 MS.gene57110:CDS 35.0%
TCTTGTATCGTTGAGTTTGA+TGG + chr6.2:3836437-3836456 MS.gene57110:CDS 35.0%
TGTTCTATTATATGCTGCTG+AGG + chr6.2:3836758-3836777 MS.gene57110:intron 35.0%
TTATTCATGAGCCTCATACA+GGG - chr6.2:3836159-3836178 None:intergenic 35.0%
TTGGATTTGCAACAGTTTAC+GGG + chr6.2:3836841-3836860 MS.gene57110:intron 35.0%
TTTATGGAGCTTATGTAACG+AGG + chr6.2:3836888-3836907 MS.gene57110:CDS 35.0%
! CGATGTGATGATATCCTTTT+TGG - chr6.2:3836700-3836719 None:intergenic 35.0%
! CTGCATAGTTACTAAGCTTT+TGG + chr6.2:3836201-3836220 MS.gene57110:intron 35.0%
! GTGATGATATCCTTTTTGGA+TGG - chr6.2:3836696-3836715 None:intergenic 35.0%
CTATACTGCGATCGGAAAAT+GGG + chr6.2:3836498-3836517 MS.gene57110:CDS 40.0%
GTTATTCATGAGCCTCATAC+AGG - chr6.2:3836160-3836179 None:intergenic 40.0%
TCATCACATCGCTATCAAAG+GGG + chr6.2:3836709-3836728 MS.gene57110:CDS 40.0%
TGCTGAGGTTTATAGAGTTG+TGG + chr6.2:3836773-3836792 MS.gene57110:intron 40.0%
! TTTGGTAGCCTAATCCTTCA+CGG - chr6.2:3836625-3836644 None:intergenic 40.0%
!! GAGTATCGCGCTTTGATTTT+AGG + chr6.2:3836659-3836678 MS.gene57110:CDS 40.0%
!! TATCGATTCCGTGAAGGATT+AGG + chr6.2:3836614-3836633 MS.gene57110:CDS 40.0%
CACCATCCAATACATTCGCA+GGG + chr6.2:3836942-3836961 MS.gene57110:CDS 45.0%
GAGCTTATGTAACGAGGCTT+TGG + chr6.2:3836894-3836913 MS.gene57110:CDS 45.0%
GCTATACTGCGATCGGAAAA+TGG + chr6.2:3836497-3836516 MS.gene57110:CDS 45.0%
GTCGAATCCATGCAAAGCAA+AGG - chr6.2:3835708-3835727 None:intergenic 45.0%
TACCCTGCGAATGTATTGGA+TGG - chr6.2:3836947-3836966 None:intergenic 45.0%
!! ATACGGCGTCGACCTAAAAA+TGG - chr6.2:3835881-3835900 None:intergenic 45.0%
!! TAGCTCTATCGATTCCGTGA+AGG + chr6.2:3836608-3836627 MS.gene57110:intron 45.0%
!! ATTAATTATATTAACTATTA+CGG + chr6.2:3835592-3835611 MS.gene57110:intron 5.0%
AGCAGGAGCTATACTGCGAT+CGG + chr6.2:3836490-3836509 MS.gene57110:CDS 50.0%
AGCTGATGCTCAAGCAAACC+AGG + chr6.2:3837136-3837155 MS.gene57110:CDS 50.0%
GCACCATCCAATACATTCGC+AGG + chr6.2:3836941-3836960 MS.gene57110:CDS 50.0%
GCGATCGGAAAATGGGAATG+TGG + chr6.2:3836505-3836524 MS.gene57110:CDS 50.0%
TATCAAAGGGGACTCTCAGC+TGG + chr6.2:3836721-3836740 MS.gene57110:CDS 50.0%
TGGAGCTATCTCCCTGTATG+AGG + chr6.2:3836145-3836164 MS.gene57110:intron 50.0%
!! AACGAGGCTTTGGAGCTGAA+GGG + chr6.2:3836904-3836923 MS.gene57110:CDS 50.0%
!! TAACGAGGCTTTGGAGCTGA+AGG + chr6.2:3836903-3836922 MS.gene57110:CDS 50.0%
AGCTGGTCCAGGATTTCCAC+GGG - chr6.2:3836468-3836487 None:intergenic 55.0%
AGTATAGCTCCTGCTCCAGC+TGG - chr6.2:3836485-3836504 None:intergenic 55.0%
CAGCTGGTCCAGGATTTCCA+CGG - chr6.2:3836469-3836488 None:intergenic 55.0%
CTCTCAGCTGGTTGTCAACC+AGG + chr6.2:3836733-3836752 MS.gene57110:CDS 55.0%
GCAAACCAGGCCGTCTATCT+CGG + chr6.2:3837149-3837168 MS.gene57110:CDS 55.0%
AACCAGGCCGTCTATCTCGG+AGG + chr6.2:3837152-3837171 MS.gene57110:CDS 60.0%
AACCTCCGAGATAGACGGCC+TGG - chr6.2:3837157-3837176 None:intergenic 60.0%
AATCCTGGACCAGCTGGAGC+AGG + chr6.2:3836473-3836492 MS.gene57110:CDS 60.0%
CGTGGAAATCCTGGACCAGC+TGG + chr6.2:3836467-3836486 MS.gene57110:CDS 60.0%
!! GAGTTTGATGGCGCATCCCG+TGG + chr6.2:3836449-3836468 MS.gene57110:CDS 60.0%
GGCGCATCCCGTGGAAATCC+TGG + chr6.2:3836458-3836477 MS.gene57110:CDS 65.0%
GCTCCTGCTCCAGCTGGTCC+AGG - chr6.2:3836479-3836498 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 3835532 3837178 3835532 ID=MS.gene57110
chr6.2 mRNA 3835532 3837178 3835532 ID=MS.gene57110.t1;Parent=MS.gene57110
chr6.2 exon 3835532 3835570 3835532 ID=MS.gene57110.t1.exon1;Parent=MS.gene57110.t1
chr6.2 CDS 3835532 3835570 3835532 ID=cds.MS.gene57110.t1;Parent=MS.gene57110.t1
chr6.2 exon 3836434 3836526 3836434 ID=MS.gene57110.t1.exon2;Parent=MS.gene57110.t1
chr6.2 CDS 3836434 3836526 3836434 ID=cds.MS.gene57110.t1;Parent=MS.gene57110.t1
chr6.2 exon 3836611 3836754 3836611 ID=MS.gene57110.t1.exon3;Parent=MS.gene57110.t1
chr6.2 CDS 3836611 3836754 3836611 ID=cds.MS.gene57110.t1;Parent=MS.gene57110.t1
chr6.2 exon 3836856 3836963 3836856 ID=MS.gene57110.t1.exon4;Parent=MS.gene57110.t1
chr6.2 CDS 3836856 3836963 3836856 ID=cds.MS.gene57110.t1;Parent=MS.gene57110.t1
chr6.2 exon 3837122 3837178 3837122 ID=MS.gene57110.t1.exon5;Parent=MS.gene57110.t1
chr6.2 CDS 3837122 3837178 3837122 ID=cds.MS.gene57110.t1;Parent=MS.gene57110.t1
Gene Sequence

>MS.gene57110

ATGCAGCATTATGTTGGATATAATGAAGTTATTTATACGGTATTTCAAATCAGATGGAATATTAATTATATTAACTATTACGGTATTAGAAAAATCTTAGATAGCATAACATAAAAATTTCTTGCTCAGAATGACACAAAACTAGTAGTGTAACTTTTTGTTATTATTATTAACCTTTGCTTTGCATGGATTCGACCCCTCTAAGTTGAACAATTCTCTTTACAGTATAAAATGAGTAATATCTATTGTTCCTGAATAAATTAAAGATAGATTAGTTACAAATCACAAGCTTGTTGAAATAAAATTTTCTAATTTTCAAACTTCCCTTTGTATGACTAATTTCACACCATTTTTAGGTCGACGCCGTATATGTTATAAATTGTAGATATGATTTCGATTTTTAATAATTTTTTCGATCTTTTAAGTCAAATCAATGGTTATAAATAATACATTTTTATACTGTGTTGAAATAAACTATCAAATTTTAGATGTTCAAATAACGTCACTCTAAAAAAAAAAAAATGTTTTGAAAGTTTTATTTTTAAAAAGATCTTAACCTATAGTATGGATTTATTTGAAAGAAACTCAACACCAAAAACAGGTGACTTGATTTTGGAGCTATCTCCCTGTATGAGGCTCATGAATAACAGTACCGTGACATAAGATTCACTGCATAGTTACTAAGCTTTTGGCAGATATACAAAAGTTCCAGAAATCATATTATAAAGTTTAAAAATGTTAGTCAATTGTATAAATTTTATTTGCTTATAGATACTTAGATGTTAACTTTTTGGAAATCTACTGTATAGTTTTCGCAATATAAAGTTTATATTAACTCTAAAGTTTTATAACATAATCTATTCTATCTATGAGATAATGCAGTAACAAAATCTTATTTGCAGCGTTCTTGTATCGTTGAGTTTGATGGCGCATCCCGTGGAAATCCTGGACCAGCTGGAGCAGGAGCTATACTGCGATCGGAAAATGGGAATGTGGTACCAACTTTACTCAACAATTCATCTGAGCTTTATATTATATGTTATTTGTAAAATGTAGCTAATTCTTATGTTTCTTTGTAGCTCTATCGATTCCGTGAAGGATTAGGCTACCAAACAAATAATGTAGCTGAGTATCGCGCTTTGATTTTAGGAATGAAACAAGCCATCCAAAAAGGATATCATCACATCGCTATCAAAGGGGACTCTCAGCTGGTTGTCAACCAGGTTTGTTCTATTATATGCTGCTGAGGTTTATAGAGTTGTGGAACTTATTCATTTTTCTTTTCTAAACAATATACTTACATATGTTATTGGATTTGCAACAGTTTACGGGTGCATGTAACATCTACAATGCAAATTTATGGAGCTTATGTAACGAGGCTTTGGAGCTGAAGGGTTACTTTCACTCATGCACCATCCAATACATTCGCAGGGTATTTATTTAGCGATTTAACGCTTTATTGTTCATGATCACTAACTCGAATGACATTCAGTTCTGACTTGTTTTTATCTCTTCCATTTTAGAATACAACTCCTTATATATTTATCTCATTGTAAACAAATAACATGTTTTCCTTTGTAATTGTTTAAGGAACTTAACACTGAAGCTGATGCTCAAGCAAACCAGGCCGTCTATCTCGGAGGTTAG
Protein sequence

>MS.gene57110.t1

MQHYVGYNEVIYTRSCIVEFDGASRGNPGPAGAGAILRSENGNVLYRFREGLGYQTNNVAEYRALILGMKQAIQKGYHHIAIKGDSQLVVNQFTGACNIYNANLWSLCNEALELKGYFHSCTIQYIRRELNTEADAQANQAVYLGG