AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22452

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22452.t1 MTR_7g100880 92.857 84 6 0 1 84 1 84 1.56e-29 100
MS.gene22452.t1 MTR_7g100905 88.158 76 4 1 9 84 3 73 1.98e-16 67.4
MS.gene22452.t1 MTR_7g100905 92.537 67 5 0 18 84 2 68 5.84e-15 63.5
MS.gene22452.t1 MTR_7g100890 81.481 81 11 2 8 84 417 497 1.07e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22452.t1 AT2G37120 80.328 61 12 0 24 84 16 76 6.06e-15 63.5
MS.gene22452.t1 AT3G53370 78.333 60 13 0 25 84 17 76 6.92e-13 58.5

Find 25 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATAGTTCTCCTGGTTAT+TGG 0.281375 7.1:-8368671 MS.gene22452:CDS
GTTTAGAAAGCTGGATCTCT+AGG 0.416187 7.1:-8368707 MS.gene22452:intron
TGGGGAAATGTTTAGAAAGC+TGG 0.417081 7.1:-8368716 MS.gene22452:intron
GTCTCTGCACCTGGAGAGTA+GGG 0.431630 7.1:-8368521 None:intergenic
GTCCATTGCCCCTACTCTCC+AGG 0.446840 7.1:+8368512 None:intergenic
ATGGCCGATGACTTTGAATT+CGG 0.448197 7.1:-8369069 MS.gene22452:CDS
ACCAGGAGAACTATTAAGCC+TGG 0.450176 7.1:+8368677 None:intergenic
TTGCTGTTGACATTCCTCAT+AGG 0.463310 7.1:-8368644 MS.gene22452:CDS
CCCAGGCTTAATAGTTCTCC+TGG 0.470539 7.1:-8368678 MS.gene22452:CDS
ATAGTTCTCCTGGTTATTGG+TGG 0.478741 7.1:-8368668 MS.gene22452:CDS
TCCTCCTTCCTTTGATCGCA+TGG 0.481901 7.1:-8369037 MS.gene22452:intron
TAGTTCTCCTGGTTATTGGT+GGG 0.495632 7.1:-8368667 MS.gene22452:CDS
AAGCAAGGAGTCTCTGCACC+TGG 0.523372 7.1:-8368530 MS.gene22452:CDS
AGTCTCTGCACCTGGAGAGT+AGG 0.526480 7.1:-8368522 None:intergenic
GAAGAGTACCATGCGATCAA+AGG 0.548062 7.1:+8369029 None:intergenic
TTTAGAAAGCTGGATCTCTA+GGG 0.566106 7.1:-8368706 MS.gene22452:intron
GAATTCAAAGTCATCGGCCA+TGG 0.568004 7.1:+8369071 None:intergenic
AGAGTGCATAATTTCCTATG+AGG 0.578802 7.1:+8368630 None:intergenic
ATCACCGAATTCAAAGTCAT+CGG 0.579370 7.1:+8369065 None:intergenic
CCAGGAGAACTATTAAGCCT+GGG 0.597197 7.1:+8368678 None:intergenic
ACAGCAACCCACCAATAACC+AGG 0.598951 7.1:+8368660 None:intergenic
AGTACCATGCGATCAAAGGA+AGG 0.619049 7.1:+8369033 None:intergenic
GGATCTCTAGGGTTCAACCC+AGG 0.683092 7.1:-8368695 MS.gene22452:CDS
ACCATGCGATCAAAGGAAGG+AGG 0.683503 7.1:+8369036 None:intergenic
TCTCTGCACCTGGAGAGTAG+GGG 0.689358 7.1:-8368520 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGATAAAAAACTTGATTA+AGG + chr7.1:8368844-8368863 None:intergenic 15.0%
!! TTAAGTTTAACTATATGTGT+TGG + chr7.1:8368708-8368727 None:intergenic 20.0%
! ATAACACAGAGCAATTAAAT+CGG + chr7.1:8368812-8368831 None:intergenic 25.0%
! ATGAGATGTAAGAAAAGAAA+AGG + chr7.1:8368588-8368607 None:intergenic 25.0%
! CTCAAAAAAGAAGATGAAAA+AGG - chr7.1:8369031-8369050 MS.gene22452:intron 25.0%
! TTCAAATTATTATGCTAGCT+CGG - chr7.1:8368740-8368759 MS.gene22452:intron 25.0%
TCTTTAGATTAGACATGTCT+TGG - chr7.1:8368656-8368675 MS.gene22452:CDS 30.0%
TTAATAGTTCTCCTGGTTAT+TGG - chr7.1:8368921-8368940 MS.gene22452:intron 30.0%
! TTAACTATATGTGTTGGTGT+CGG + chr7.1:8368702-8368721 None:intergenic 30.0%
!!! TATCTTTTGTTGTTGCTCTT+GGG - chr7.1:8368857-8368876 MS.gene22452:intron 30.0%
!!! TTATCTTTTGTTGTTGCTCT+TGG - chr7.1:8368856-8368875 MS.gene22452:intron 30.0%
!!! TTCATCTTCTTTTTTGAGAG+TGG + chr7.1:8369029-8369048 None:intergenic 30.0%
AGAGTGCATAATTTCCTATG+AGG + chr7.1:8368965-8368984 None:intergenic 35.0%
ATCACCGAATTCAAAGTCAT+CGG + chr7.1:8368530-8368549 None:intergenic 35.0%
TTTAGAAAGCTGGATCTCTA+GGG - chr7.1:8368886-8368905 MS.gene22452:intron 35.0%
!!! ATCTTTTGTTGTTGCTCTTG+GGG - chr7.1:8368858-8368877 MS.gene22452:intron 35.0%
AAAAAGGAGAGACTGAAGCA+AGG - chr7.1:8369047-8369066 MS.gene22452:CDS 40.0%
ATAGTTCTCCTGGTTATTGG+TGG - chr7.1:8368924-8368943 MS.gene22452:intron 40.0%
ATGGCCGATGACTTTGAATT+CGG - chr7.1:8368523-8368542 MS.gene22452:CDS 40.0%
GTTTAGAAAGCTGGATCTCT+AGG - chr7.1:8368885-8368904 MS.gene22452:intron 40.0%
TAGTTCTCCTGGTTATTGGT+GGG - chr7.1:8368925-8368944 MS.gene22452:intron 40.0%
TGGGGAAATGTTTAGAAAGC+TGG - chr7.1:8368876-8368895 MS.gene22452:intron 40.0%
! ATTATTATGCTAGCTCGGTG+TGG - chr7.1:8368745-8368764 MS.gene22452:intron 40.0%
! GATTAGACATGTCTTGGTGT+AGG - chr7.1:8368662-8368681 MS.gene22452:CDS 40.0%
! TTGCTGTTGACATTCCTCAT+AGG - chr7.1:8368948-8368967 MS.gene22452:intron 40.0%
!!! AGTGGCTTCTTTTTTCTAGG+AGG + chr7.1:8369011-8369030 None:intergenic 40.0%
!!! CTTCTTTTTTCTAGGAGGGA+GGG + chr7.1:8369006-8369025 None:intergenic 40.0%
!!! GAGAGTGGCTTCTTTTTTCT+AGG + chr7.1:8369014-8369033 None:intergenic 40.0%
!!! GTGGCTTCTTTTTTCTAGGA+GGG + chr7.1:8369010-8369029 None:intergenic 40.0%
ACCAGGAGAACTATTAAGCC+TGG + chr7.1:8368918-8368937 None:intergenic 45.0%
AGTACCATGCGATCAAAGGA+AGG + chr7.1:8368562-8368581 None:intergenic 45.0%
CCAGGAGAACTATTAAGCCT+GGG + chr7.1:8368917-8368936 None:intergenic 45.0%
!! CTATATGTGTTGGTGTCGGA+CGG + chr7.1:8368698-8368717 None:intergenic 45.0%
!! GAAGAGTACCATGCGATCAA+AGG + chr7.1:8368566-8368585 None:intergenic 45.0%
!!! GCTTCTTTTTTCTAGGAGGG+AGG + chr7.1:8369007-8369026 None:intergenic 45.0%
ACAGCAACCCACCAATAACC+AGG + chr7.1:8368935-8368954 None:intergenic 50.0%
ACCATGCGATCAAAGGAAGG+AGG + chr7.1:8368559-8368578 None:intergenic 50.0%
CCCAGGCTTAATAGTTCTCC+TGG - chr7.1:8368914-8368933 MS.gene22452:intron 50.0%
TCCTCCTTCCTTTGATCGCA+TGG - chr7.1:8368555-8368574 MS.gene22452:CDS 50.0%
!! AAGAGTGTCTGCGTGTGAGA+TGG + chr7.1:8368640-8368659 None:intergenic 50.0%
AAGCAAGGAGTCTCTGCACC+TGG - chr7.1:8369062-8369081 MS.gene22452:CDS 55.0%
!! GGATCTCTAGGGTTCAACCC+AGG - chr7.1:8368897-8368916 MS.gene22452:intron 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 8368523 8369091 8368523 ID=MS.gene22452
chr7.1 mRNA 8368523 8369091 8368523 ID=MS.gene22452.t1;Parent=MS.gene22452
chr7.1 exon 8369038 8369091 8369038 ID=MS.gene22452.t1.exon1;Parent=MS.gene22452.t1
chr7.1 CDS 8369038 8369091 8369038 ID=cds.MS.gene22452.t1;Parent=MS.gene22452.t1
chr7.1 exon 8368523 8368723 8368523 ID=MS.gene22452.t1.exon2;Parent=MS.gene22452.t1
chr7.1 CDS 8368523 8368723 8368523 ID=cds.MS.gene22452.t1;Parent=MS.gene22452.t1
Gene Sequence

>MS.gene22452

ATGGCCGATGACTTTGAATTCGGTGATAAAGTTCCTCCTTCCTTTGATCGCATGGTACTCTTCCTTTTCTTTTCTTACATCTCATTATTTGTATCATTTCATTCTTTACAGCATCCATCTCACACGCAGACACTCTTTAGATTAGACATGTCTTGGTGTAGGACACGTGACACCGTCCGACACCAACACATATAGTTAAACTTAACTATGTGATCTTTTCAAATTATTATGCTAGCTCGGTGTGGTATCTGATGTATGTGTATGTATTCGTGTTTTGCTAACATGTCCGATTTAATTGCTCTGTGTTATCTGATATGACCTTAATCAAGTTTTTTATCTTTTGTTGTTGCTCTTGGGGAAATGTTTAGAAAGCTGGATCTCTAGGGTTCAACCCAGGCTTAATAGTTCTCCTGGTTATTGGTGGGTTGCTGTTGACATTCCTCATAGGAAATTATGCACTCTACGTTTATGCACAGAAGACCCTCCCTCCTAGAAAAAAGAAGCCACTCTCAAAAAAGAAGATGAAAAAGGAGAGACTGAAGCAAGGAGTCTCTGCACCTGGAGAGTAG
Protein sequence

>MS.gene22452.t1

MADDFEFGDKVPPSFDRMKAGSLGFNPGLIVLLVIGGLLLTFLIGNYALYVYAQKTLPPRKKKPLSKKKMKKERLKQGVSAPGE