AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057237


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057237.t1 MTR_3g092600 99.091 110 1 0 1 110 1 110 3.12e-74 215
MS.gene057237.t1 MTR_2g066750 98.182 110 2 0 1 110 1 110 1.07e-73 214
MS.gene057237.t1 MTR_8g024350 64.545 110 37 2 1 110 1 108 1.42e-33 112
MS.gene057237.t1 MTR_7g118060 62.712 59 22 0 1 59 1 59 1.00e-20 80.5
MS.gene057237.t1 MTR_7g005740 66.129 62 2 1 1 62 1 43 1.52e-19 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057237.t1 AT5G24510 57.391 115 40 4 1 110 1 111 4.14e-36 119
MS.gene057237.t1 AT5G47700 57.658 111 45 1 2 110 3 113 7.99e-29 100
MS.gene057237.t1 AT5G47700 57.658 111 45 1 2 110 3 113 7.99e-29 100
MS.gene057237.t1 AT1G01100 60.185 108 42 1 4 110 5 112 4.26e-28 99.0
MS.gene057237.t1 AT1G01100 60.185 108 42 1 4 110 5 112 4.26e-28 99.0
MS.gene057237.t1 AT1G01100 60.185 108 42 1 4 110 5 112 4.26e-28 99.0
MS.gene057237.t1 AT1G01100 50.459 109 39 1 2 110 3 96 2.14e-27 96.7
MS.gene057237.t1 AT4G00810 54.955 111 48 1 2 110 3 113 2.87e-27 97.1
MS.gene057237.t1 AT4G00810 54.955 111 48 1 2 110 3 113 2.87e-27 97.1

Find 31 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAATGAGTTCCGGCGAAT+TGG 0.294649 3.2:-77917623 None:intergenic
GTCATCGTCACTTTCTTCCT+TGG 0.329724 3.2:+77916311 None:intergenic
ACGTCACCGTTGAATCTTAC+TGG 0.348075 3.2:-77917417 MS.gene057237:CDS
AAAATGAGTTCCGGCGAATT+GGG 0.368280 3.2:-77917622 MS.gene057237:CDS
TCTGAGCAAGCTTAGCGAAT+AGG 0.392998 3.2:+77917389 None:intergenic
GATAATAGACTTACGGTGAT+TGG 0.399296 3.2:+77917559 None:intergenic
GCCGTATCTGCACCCGCTGC+TGG 0.401410 3.2:-77917310 MS.gene057237:CDS
TCTGCACCCGCTGCTGGTGG+TGG 0.439771 3.2:-77917304 MS.gene057237:CDS
GCGGCTCCACCACCAGCAGC+GGG 0.451994 3.2:+77917298 None:intergenic
ATAATAGACTTACGGTGATT+GGG 0.452174 3.2:+77917560 None:intergenic
GAAGATCGGTACTTTGTTGA+AGG 0.461021 3.2:-77917446 MS.gene057237:CDS
ACCTGCCGCCGTTGAAAAGA+AGG 0.476631 3.2:-77917263 MS.gene057237:intron
TGCGGCTCCACCACCAGCAG+CGG 0.489051 3.2:+77917297 None:intergenic
TTGAACTCCGGCGCTGTTGG+TGG 0.510539 3.2:-77917343 MS.gene057237:CDS
ACAATTCACAAAATGAGTTC+CGG 0.522809 3.2:-77917631 None:intergenic
GGAAGAAAGTGACGATGACA+TGG 0.523361 3.2:-77916307 MS.gene057237:CDS
AGCGGCACCACCAACAGCGC+CGG 0.527844 3.2:+77917336 None:intergenic
ACCAGCAGCGGGTGCAGATA+CGG 0.530473 3.2:+77917309 None:intergenic
GCAAGCTTAGCGAATAGGCT+TGG 0.542190 3.2:+77917394 None:intergenic
TTTGTTTAGGCGGAGAAGAT+CGG 0.543289 3.2:-77917460 MS.gene057237:intron
GGCAGGTTCGGCAGCTGCTG+CGG 0.548908 3.2:+77917279 None:intergenic
GTAAATGCAGCCCAATTCGC+CGG 0.571217 3.2:+77917612 None:intergenic
TCCATCGTCGTGGAGTATCA+AGG 0.573982 3.2:+77917585 None:intergenic
ACCTTGATACTCCACGACGA+TGG 0.576373 3.2:-77917586 MS.gene057237:CDS
GTATCTGCACCCGCTGCTGG+TGG 0.603091 3.2:-77917307 MS.gene057237:CDS
GCTTGGCCAGTAAGATTCAA+CGG 0.629260 3.2:+77917411 None:intergenic
GTGTTTGTAGGAGGAAGCCA+AGG 0.654949 3.2:-77916328 MS.gene057237:intron
TGATTGGGATTCCATCGTCG+TGG 0.662981 3.2:+77917575 None:intergenic
GGGTGCAGATACGGCAACAG+CGG 0.665524 3.2:+77917318 None:intergenic
GAAGAAAGTGACGATGACAT+GGG 0.678372 3.2:-77916306 MS.gene057237:CDS
ATCGTCGTGGAGTATCAAGG+TGG 0.738649 3.2:+77917588 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTGTATTGAAATTAGAAA+CGG - chr3.2:77916744-77916763 MS.gene057237:intron 15.0%
!! TATAAAAGATATAATTTCCT+CGG - chr3.2:77916966-77916985 MS.gene057237:intron 15.0%
!!! AATTATATGTTTTTATCTTG+AGG + chr3.2:77916843-77916862 None:intergenic 15.0%
!!! TTTTCATGCAAAATAATTTT+TGG + chr3.2:77917037-77917056 None:intergenic 15.0%
!! AAAGTAAAAAATGTGGATAT+AGG + chr3.2:77917406-77917425 None:intergenic 20.0%
!! AAGTAAAAAATGTGGATATA+GGG + chr3.2:77917405-77917424 None:intergenic 20.0%
!! ATTGTATTGAAATTAGAAAC+GGG - chr3.2:77916745-77916764 MS.gene057237:intron 20.0%
!!! AATTGTTGTTTTTCTTCATT+GGG - chr3.2:77917116-77917135 MS.gene057237:intron 20.0%
!!! ATATCCACATTTTTTACTTT+TGG - chr3.2:77917406-77917425 MS.gene057237:CDS 20.0%
!!! ATGAAAACATGTAGTTATTT+TGG - chr3.2:77917074-77917093 MS.gene057237:intron 20.0%
!!! ATTTTTCTTTTGTTACTGTT+TGG - chr3.2:77916416-77916435 MS.gene057237:intron 20.0%
!!! TAATTGTTGTTTTTCTTCAT+TGG - chr3.2:77917115-77917134 MS.gene057237:intron 20.0%
!!! TATCCACATTTTTTACTTTT+GGG - chr3.2:77917407-77917426 MS.gene057237:CDS 20.0%
!!! TTTTTCTTTTGTTACTGTTT+GGG - chr3.2:77916417-77916436 MS.gene057237:intron 20.0%
! CGATTTGAAGATTATAGAAA+TGG + chr3.2:77916384-77916403 None:intergenic 25.0%
! GACAACTCTGAATATAATTA+TGG - chr3.2:77917166-77917185 MS.gene057237:intron 25.0%
! TATAGAAATGGAATTGAAGA+GGG + chr3.2:77916372-77916391 None:intergenic 25.0%
! TTAAATAAGCCAATCATAAC+TGG - chr3.2:77917379-77917398 MS.gene057237:CDS 25.0%
! TTATAGAAATGGAATTGAAG+AGG + chr3.2:77916373-77916392 None:intergenic 25.0%
!! AAACAATACCTTCTTTTCAA+CGG + chr3.2:77916654-77916673 None:intergenic 25.0%
!!! ATAAAGTTAACTTGTTTTCC+TGG - chr3.2:77917296-77917315 MS.gene057237:CDS 25.0%
!!! TAAAGTTAACTTGTTTTCCT+GGG - chr3.2:77917297-77917316 MS.gene057237:CDS 25.0%
AAAAGATATAATTTCCTCGG+AGG - chr3.2:77916969-77916988 MS.gene057237:intron 30.0%
AAAGATATAATTTCCTCGGA+GGG - chr3.2:77916970-77916989 MS.gene057237:intron 30.0%
AATGTAAGCTTATGCATAAG+TGG + chr3.2:77917251-77917270 None:intergenic 30.0%
AGATGCAAGTTCTACAAAAT+AGG + chr3.2:77916943-77916962 None:intergenic 30.0%
ATAATAGACTTACGGTGATT+GGG + chr3.2:77916349-77916368 None:intergenic 30.0%
ATGTAAGCTTATGCATAAGT+GGG + chr3.2:77917250-77917269 None:intergenic 30.0%
CAGCAAATGACAGTATTTAT+CGG + chr3.2:77917006-77917025 None:intergenic 30.0%
TATTCAGAGTTGTCTTGAAA+AGG + chr3.2:77917160-77917179 None:intergenic 30.0%
TCACCCAAAAGTAAAAAATG+TGG + chr3.2:77917413-77917432 None:intergenic 30.0%
TGTAATGATGAGTTACTGAT+TGG - chr3.2:77916715-77916734 MS.gene057237:intron 30.0%
TGTTAAATGAATGCTAGTTC+TGG - chr3.2:77916792-77916811 MS.gene057237:intron 30.0%
TTTGTTTAGTGACACTGTTT+GGG + chr3.2:77917352-77917371 None:intergenic 30.0%
! ATTTTGTAGAACTTGCATCT+AGG - chr3.2:77916943-77916962 MS.gene057237:intron 30.0%
AAGATATAATTTCCTCGGAG+GGG - chr3.2:77916971-77916990 MS.gene057237:intron 35.0%
CTTCATTGGGATTTGAGAAT+TGG - chr3.2:77917129-77917148 MS.gene057237:intron 35.0%
GAAGAGGGATAATAGACTTA+CGG + chr3.2:77916357-77916376 None:intergenic 35.0%
GATAATAGACTTACGGTGAT+TGG + chr3.2:77916350-77916369 None:intergenic 35.0%
GTTTGTTTAGTGACACTGTT+TGG + chr3.2:77917353-77917372 None:intergenic 35.0%
TCATTCCATACTGTGTTTGT+AGG - chr3.2:77917566-77917585 MS.gene057237:intron 35.0%
! ATTTTGTGCTGTGATCAAGT+TGG - chr3.2:77916910-77916929 MS.gene057237:intron 35.0%
! TCTTTTGTTACTGTTTGGGT+TGG - chr3.2:77916421-77916440 MS.gene057237:intron 35.0%
! TTTTGTGCTGTGATCAAGTT+GGG - chr3.2:77916911-77916930 MS.gene057237:intron 35.0%
!!! GTTTGGGTTGGTTTTTGTTT+AGG - chr3.2:77916433-77916452 MS.gene057237:intron 35.0%
ATCAACAAGACAATCTTCCC+AGG + chr3.2:77917317-77917336 None:intergenic 40.0%
GAAGAAAGTGACGATGACAT+GGG - chr3.2:77917600-77917619 MS.gene057237:CDS 40.0%
GAAGATCGGTACTTTGTTGA+AGG - chr3.2:77916460-77916479 MS.gene057237:intron 40.0%
GATATAGGGCCAGTTATGAT+TGG + chr3.2:77917391-77917410 None:intergenic 40.0%
TTCCATACTGTGTTTGTAGG+AGG - chr3.2:77917569-77917588 MS.gene057237:intron 40.0%
TTCCTCCTACAAACACAGTA+TGG + chr3.2:77917574-77917593 None:intergenic 40.0%
TTTGTTTAGGCGGAGAAGAT+CGG - chr3.2:77916446-77916465 MS.gene057237:intron 40.0%
! CAATACCTTCTTTTCAACGG+CGG + chr3.2:77916651-77916670 None:intergenic 40.0%
! TTTGTGCTGTGATCAAGTTG+GGG - chr3.2:77916912-77916931 MS.gene057237:intron 40.0%
!! GATGATCTCGTTTTGAACTC+CGG - chr3.2:77916551-77916570 MS.gene057237:intron 40.0%
!!! TGGGTTGGTTTTTGTTTAGG+CGG - chr3.2:77916436-77916455 MS.gene057237:intron 40.0%
ACGTCACCGTTGAATCTTAC+TGG - chr3.2:77916489-77916508 MS.gene057237:intron 45.0%
GCTTGGCCAGTAAGATTCAA+CGG + chr3.2:77916498-77916517 None:intergenic 45.0%
GGAAGAAAGTGACGATGACA+TGG - chr3.2:77917599-77917618 MS.gene057237:CDS 45.0%
TCTGAGCAAGCTTAGCGAAT+AGG + chr3.2:77916520-77916539 None:intergenic 45.0%
! GTCATCGTCACTTTCTTCCT+TGG + chr3.2:77917598-77917617 None:intergenic 45.0%
ACCTTGATACTCCACGACGA+TGG - chr3.2:77916320-77916339 MS.gene057237:CDS 50.0%
GCAAGCTTAGCGAATAGGCT+TGG + chr3.2:77916515-77916534 None:intergenic 50.0%
GTAAATGCAGCCCAATTCGC+CGG + chr3.2:77916297-77916316 None:intergenic 50.0%
GTGTTTGTAGGAGGAAGCCA+AGG - chr3.2:77917578-77917597 MS.gene057237:CDS 50.0%
TGATTGGGATTCCATCGTCG+TGG + chr3.2:77916334-77916353 None:intergenic 50.0%
! ATCGTCGTGGAGTATCAAGG+TGG + chr3.2:77916321-77916340 None:intergenic 50.0%
! TCCATCGTCGTGGAGTATCA+AGG + chr3.2:77916324-77916343 None:intergenic 50.0%
ACCTGCCGCCGTTGAAAAGA+AGG - chr3.2:77916643-77916662 MS.gene057237:intron 55.0%
! ACCTTCTTTTCAACGGCGGC+AGG + chr3.2:77916647-77916666 None:intergenic 55.0%
! CTTTTCAACGGCGGCAGGTT+CGG + chr3.2:77916642-77916661 None:intergenic 55.0%
!! GTTTTGAACTCCGGCGCTGT+TGG - chr3.2:77916560-77916579 MS.gene057237:intron 55.0%
ACCAGCAGCGGGTGCAGATA+CGG + chr3.2:77916600-77916619 None:intergenic 60.0%
CGGATACAGAATCCCCTCCG+AGG + chr3.2:77916986-77917005 None:intergenic 60.0%
GGGTGCAGATACGGCAACAG+CGG + chr3.2:77916591-77916610 None:intergenic 60.0%
TTGAACTCCGGCGCTGTTGG+TGG - chr3.2:77916563-77916582 MS.gene057237:intron 60.0%
GTATCTGCACCCGCTGCTGG+TGG - chr3.2:77916599-77916618 MS.gene057237:intron 65.0%
AGCGGCACCACCAACAGCGC+CGG + chr3.2:77916573-77916592 None:intergenic 70.0%
GCCGTATCTGCACCCGCTGC+TGG - chr3.2:77916596-77916615 MS.gene057237:intron 70.0%
GGCAGGTTCGGCAGCTGCTG+CGG + chr3.2:77916630-77916649 None:intergenic 70.0%
TCTGCACCCGCTGCTGGTGG+TGG - chr3.2:77916602-77916621 MS.gene057237:intron 70.0%
TGCGGCTCCACCACCAGCAG+CGG + chr3.2:77916612-77916631 None:intergenic 70.0%
GCGGCTCCACCACCAGCAGC+GGG + chr3.2:77916611-77916630 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 77916287 77917641 77916287 ID=MS.gene057237
chr3.2 mRNA 77916287 77917641 77916287 ID=MS.gene057237.t1;Parent=MS.gene057237
chr3.2 exon 77917573 77917641 77917573 ID=MS.gene057237.t1.exon1;Parent=MS.gene057237.t1
chr3.2 CDS 77917573 77917641 77917573 ID=cds.MS.gene057237.t1;Parent=MS.gene057237.t1
chr3.2 exon 77917264 77917473 77917264 ID=MS.gene057237.t1.exon2;Parent=MS.gene057237.t1
chr3.2 CDS 77917264 77917473 77917264 ID=cds.MS.gene057237.t1;Parent=MS.gene057237.t1
chr3.2 exon 77916287 77916340 77916287 ID=MS.gene057237.t1.exon3;Parent=MS.gene057237.t1
chr3.2 CDS 77916287 77916340 77916287 ID=cds.MS.gene057237.t1;Parent=MS.gene057237.t1
Gene Sequence

>MS.gene057237

ATGAGTTCCGGCGAATTGGGCTGCATTTACGCCACCTTGATACTCCACGACGATGGAATCCCAATCACCGTAAGTCTATTATCCCTCTTCAATTCCATTTCTATAATCTTCAAATCGCTCATAGATCTCATTTTTCTTTTGTTACTGTTTGGGTTGGTTTTTGTTTAGGCGGAGAAGATCGGTACTTTGTTGAAGGCTGCTAACGTCACCGTTGAATCTTACTGGCCAAGCCTATTCGCTAAGCTTGCTCAGAGCAAGAACGTTGATGATCTCGTTTTGAACTCCGGCGCTGTTGGTGGTGCCGCTGTTGCCGTATCTGCACCCGCTGCTGGTGGTGGAGCCGCAGCAGCTGCCGAACCTGCCGCCGTTGAAAAGAAGGTATTGTTTTTAATTCTTTTTTTTATGATTATGATTTTTGTATGAAATTGTGTAATGATGAGTTACTGATTGGTGAACTAATTGTATTGAAATTAGAAACGGGTTTTGATAAATCGTTCATCTGTAGTGTTAAATGAATGCTAGTTCTGGAATTGTACAATAGTATTGCAATTTTCCTCAAGATAAAAACATATAATTGATTTTCTTACATTGTTTGTTCTGTTGAATTTGCTTGCAAATTGATGATTTTGTGCTGTGATCAAGTTGGGGTTATACCTATTTTGTAGAACTTGCATCTAGGTATAAAAGATATAATTTCCTCGGAGGGGATTCTGTATCCGATAAATACTGTCATTTGCTGCAATTACTCCAAAAATTATTTTGCATGAAAACATTCACTATAAGTTTTATGAAAACATGTAGTTATTTTGGTTTTTTGAAGAAATAGTATAATTGTTGTTTTTCTTCATTGGGATTTGAGAATTGGACTATCCTTTTCAAGACAACTCTGAATATAATTATGGTACTCTTTTGATTTGCAACTTATGTACAGCTTATTGCTCAAGCGCTTCTCTTGATATGCCCACTTATGCATAAGCTTACATTTTCTATTTTCTATAGAAAAGATAAAATAAAGTTAACTTGTTTTCCTGGGAAGATTGTCTTGTTGATTTCATTAGTTCTCCCAAACAGTGTCACTAAACAAACATAGCTTTAAATAAGCCAATCATAACTGGCCCTATATCCACATTTTTTACTTTTGGGTGAGTTTTTACTCTTTCACAATAATTTAATGTTTAATGTTGTATTATAGCTTTGATGCAGTCAATTATGAGCACTGCACAGACATAGCTTATTACTTCAATTTGTTTTGATTATGTTGTATATAGCAAAACTTAATTCATTCCATACTGTGTTTGTAGGAGGAAGCCAAGGAAGAAAGTGACGATGACATGGGCTTTAGTTTGTTTGATTAA

Protein sequence

>MS.gene057237.t1

MSSGELGCIYATLILHDDGIPITAEKIGTLLKAANVTVESYWPSLFAKLAQSKNVDDLVLNSGAVGGAAVAVSAPAAGGGAAAAAEPAAVEKKEEAKEESDDDMGFSLFD