AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37997

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37997.t1 MTR_5g096610 56.863 102 43 1 1 101 21 122 3.21e-39 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTATATTCCTTCTTGCTTC+TGG 0.212854 5.1:+76951658 None:intergenic
GATATGCTTGGATGAACTTT+TGG 0.243846 5.1:-76951174 MS.gene37997:CDS
TTTGTTCCACCACAAAATTA+TGG 0.333981 5.1:-76951589 MS.gene37997:CDS
TTTCTTTAGGCTATTACTCA+TGG 0.421485 5.1:-76951293 MS.gene37997:intron
AAGAACCTGTGGTTTGTCTC+AGG 0.425780 5.1:+76951700 None:intergenic
CACCACAAAATTATGGAGCT+TGG 0.430852 5.1:-76951582 MS.gene37997:CDS
TGTTGGTGCGGTAACGGTCT+CGG 0.455039 5.1:+76951197 None:intergenic
AATCACCAGGGAGCTCTTCA+AGG 0.457956 5.1:+76951620 None:intergenic
TTCTTTAGGCTATTACTCAT+GGG 0.494106 5.1:-76951292 MS.gene37997:intron
CATATCTGTTGGTGCGGTAA+CGG 0.499015 5.1:+76951191 None:intergenic
CTGAAACTCTCAAGAACCTG+TGG 0.518744 5.1:+76951689 None:intergenic
ACAAATTGCTCGAAATCACC+AGG 0.563161 5.1:+76951607 None:intergenic
AACCTGTGGTTTGTCTCAGG+TGG 0.578043 5.1:+76951703 None:intergenic
ACCGCACCAACAGATATGCT+TGG 0.580278 5.1:-76951186 MS.gene37997:CDS
CACTACCTTGAAGAGCTCCC+TGG 0.582630 5.1:-76951625 MS.gene37997:CDS
GTTCATCCAAGCATATCTGT+TGG 0.609345 5.1:+76951180 None:intergenic
TCCAAGCATATCTGTTGGTG+CGG 0.624491 5.1:+76951185 None:intergenic
TTTACGGCCGAAAATGGACG+CGG 0.649194 5.1:-76951261 MS.gene37997:CDS
TGGAGCTTGGAGTAATGATG+AGG 0.655946 5.1:-76951569 MS.gene37997:CDS
TTCCACCTGAGACAAACCAC+AGG 0.670730 5.1:-76951705 MS.gene37997:CDS
CTAGAGAGATTGTGTCAACG+AGG 0.718189 5.1:-76951234 MS.gene37997:CDS
CAAATTGCTCGAAATCACCA+GGG 0.727892 5.1:+76951608 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTTTAATGAAAAATAACA+TGG + chr5.1:76951441-76951460 None:intergenic 10.0%
!!! AACATATTTTAATCAAGAAA+AGG + chr5.1:76951418-76951437 None:intergenic 15.0%
!!! TAATGTTTTCTATTTTCTTT+AGG - chr5.1:76951562-76951581 MS.gene37997:intron 15.0%
!! TCATTAAAATATGTGTTCTT+TGG - chr5.1:76951346-76951365 MS.gene37997:intron 20.0%
!!! AACATGTTTTAATCAAGAAA+AGG + chr5.1:76951519-76951538 None:intergenic 20.0%
!!! CTTTGGTTTTTTTTTTTTGA+AGG - chr5.1:76951363-76951382 MS.gene37997:intron 20.0%
! TCATTAAAATATGCGTTCTT+TGG - chr5.1:76951450-76951469 MS.gene37997:intron 25.0%
TTCTTTAGGCTATTACTCAT+GGG - chr5.1:76951576-76951595 MS.gene37997:CDS 30.0%
TTTCTTTAGGCTATTACTCA+TGG - chr5.1:76951575-76951594 MS.gene37997:CDS 30.0%
TTTGTTCCACCACAAAATTA+TGG - chr5.1:76951279-76951298 MS.gene37997:CDS 30.0%
! AAATTTTTCCAGAAGCAAGA+AGG - chr5.1:76951202-76951221 MS.gene37997:CDS 30.0%
!!! GTTCTTTGGTTTTTTGTTGA+AGG - chr5.1:76951464-76951483 MS.gene37997:intron 30.0%
GTTATATTCCTTCTTGCTTC+TGG + chr5.1:76951213-76951232 None:intergenic 35.0%
! CTCATGGGATTGAGATTTTA+CGG - chr5.1:76951591-76951610 MS.gene37997:CDS 35.0%
! GATATGCTTGGATGAACTTT+TGG - chr5.1:76951694-76951713 MS.gene37997:CDS 35.0%
ACAAATTGCTCGAAATCACC+AGG + chr5.1:76951264-76951283 None:intergenic 40.0%
CAAATTGCTCGAAATCACCA+GGG + chr5.1:76951263-76951282 None:intergenic 40.0%
CACCACAAAATTATGGAGCT+TGG - chr5.1:76951286-76951305 MS.gene37997:CDS 40.0%
GTTCATCCAAGCATATCTGT+TGG + chr5.1:76951691-76951710 None:intergenic 40.0%
! CAAGCTCCATAATTTTGTGG+TGG + chr5.1:76951288-76951307 None:intergenic 40.0%
! CTCCAAGCTCCATAATTTTG+TGG + chr5.1:76951291-76951310 None:intergenic 40.0%
! TAGAAATCCGCGTCCATTTT+CGG + chr5.1:76951617-76951636 None:intergenic 40.0%
! TGAGATTTTACGGCCGAAAA+TGG - chr5.1:76951601-76951620 MS.gene37997:CDS 40.0%
CATATCTGTTGGTGCGGTAA+CGG + chr5.1:76951680-76951699 None:intergenic 45.0%
CTAGAGAGATTGTGTCAACG+AGG - chr5.1:76951634-76951653 MS.gene37997:CDS 45.0%
CTGAAACTCTCAAGAACCTG+TGG + chr5.1:76951182-76951201 None:intergenic 45.0%
TCCAAGCATATCTGTTGGTG+CGG + chr5.1:76951686-76951705 None:intergenic 45.0%
TGGAGCTTGGAGTAATGATG+AGG - chr5.1:76951299-76951318 MS.gene37997:intron 45.0%
! AAGAACCTGTGGTTTGTCTC+AGG + chr5.1:76951171-76951190 None:intergenic 45.0%
AATCACCAGGGAGCTCTTCA+AGG + chr5.1:76951251-76951270 None:intergenic 50.0%
ACCGCACCAACAGATATGCT+TGG - chr5.1:76951682-76951701 MS.gene37997:CDS 50.0%
TTCCACCTGAGACAAACCAC+AGG - chr5.1:76951163-76951182 MS.gene37997:CDS 50.0%
TTTACGGCCGAAAATGGACG+CGG - chr5.1:76951607-76951626 MS.gene37997:CDS 50.0%
! AACCTGTGGTTTGTCTCAGG+TGG + chr5.1:76951168-76951187 None:intergenic 50.0%
CACTACCTTGAAGAGCTCCC+TGG - chr5.1:76951243-76951262 MS.gene37997:CDS 55.0%
! TGTTGGTGCGGTAACGGTCT+CGG + chr5.1:76951674-76951693 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 76951153 76951737 76951153 ID=MS.gene37997
chr5.1 mRNA 76951153 76951737 76951153 ID=MS.gene37997.t1;Parent=MS.gene37997
chr5.1 exon 76951565 76951737 76951565 ID=MS.gene37997.t1.exon1;Parent=MS.gene37997.t1
chr5.1 CDS 76951565 76951737 76951565 ID=cds.MS.gene37997.t1;Parent=MS.gene37997.t1
chr5.1 exon 76951153 76951306 76951153 ID=MS.gene37997.t1.exon2;Parent=MS.gene37997.t1
chr5.1 CDS 76951153 76951306 76951153 ID=cds.MS.gene37997.t1;Parent=MS.gene37997.t1
Gene Sequence

>MS.gene37997

ATGATAATATTTCCACCTGAGACAAACCACAGGTTCTTGAGAGTTTCAGAAATTTTTCCAGAAGCAAGAAGGAATATAACTCTTTTGCAACACTACCTTGAAGAGCTCCCTGGTGATTTCGAGCAATTTGTTCCACCACAAAATTATGGAGCTTGGAGTAATGATGAGGATCAGTAAGTATATTTCTTTTTCTTCATTAAAATATGTGTTCTTTGGTTTTTTTTTTTTGAAGGAGTGTTCTTTGTTATTTTTAGAAGCTATTCCTTTTCTTGATTAAAATATGTTCCATGTTATTTTTCATTAAAATATGCGTTCTTTGGTTTTTTGTTGAAGGAGTGTTCTTTGTTATTTTTAGAAGCTATTCCTTTTCTTGATTAAAACATGTTCTATGTTAATTTTATTGAACTATTAATGTTTTCTATTTTCTTTAGGCTATTACTCATGGGATTGAGATTTTACGGCCGAAAATGGACGCGGATTTCTAGAGAGATTGTGTCAACGAGGAACGCATCGCAATGCCGAGACCGTTACCGCACCAACAGATATGCTTGGATGAACTTTTGGAAAACGAAATTGATGATTTGA
Protein sequence

>MS.gene37997.t1

MIIFPPETNHRFLRVSEIFPEARRNITLLQHYLEELPGDFEQFVPPQNYGAWSNDEDQLLLMGLRFYGRKWTRISREIVSTRNASQCRDRYRTNRYAWMNFWKTKLMI