AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06524


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06524.t1 MTR_3g094080 99.415 171 1 0 1 171 1 171 5.64e-127 353
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06524.t1 AT3G56290 60.920 174 62 2 1 170 1 172 5.05e-70 209

Find 33 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCCTTCTTCTCTTGTT+TGG 0.250102 3.2:+78860648 None:intergenic
GCTAGAGAAGCCACAAAATC+TGG 0.288256 3.2:-78860532 MS.gene06524:CDS
CACTTGTCTTGCTTCACCCT+TGG 0.361736 3.2:+78860059 None:intergenic
AACATGCAAGGTATGCAAAA+AGG 0.370388 3.2:-78860085 MS.gene06524:CDS
TGTGCAGAGAAGGCAAAATC+TGG 0.391867 3.2:-78860006 MS.gene06524:CDS
GGAGCTCTTAGAAGGAAAAT+TGG 0.394746 3.2:-78860391 MS.gene06524:CDS
GAGAATATGTTGAAGAGGGT+TGG 0.421247 3.2:-78860116 MS.gene06524:CDS
AGAATATGTTGAAGAGGGTT+GGG 0.437524 3.2:-78860115 MS.gene06524:CDS
TGCAGTATGGAGCTCTTAGA+AGG 0.445617 3.2:-78860399 MS.gene06524:intron
TGAGCATCTTGTGCGGATCT+TGG 0.446163 3.2:+78860568 None:intergenic
AACATACATAAATGGGTCTT+GGG 0.452482 3.2:-78860780 None:intergenic
GAACATACATAAATGGGTCT+TGG 0.457157 3.2:-78860781 None:intergenic
TTCAGCCAAACAAGAGAAGA+AGG 0.459242 3.2:-78860653 MS.gene06524:CDS
CTAGAGAAGCCACAAAATCT+GGG 0.485260 3.2:-78860531 MS.gene06524:CDS
GTATAATAAGGAGGGGTCAA+TGG 0.496878 3.2:+78860751 None:intergenic
GAAAATTGGTGGGACTTACA+AGG 0.499480 3.2:-78860377 MS.gene06524:CDS
GCAAGACAAGTGGACAAGCT+TGG 0.505588 3.2:-78860048 MS.gene06524:CDS
AATCTGGGGAACAAATGAGC+AGG 0.521804 3.2:-78860516 MS.gene06524:CDS
CTCTTAGAAGGAAAATTGGT+GGG 0.533115 3.2:-78860387 MS.gene06524:CDS
TGTTCATAAAGAGAAGAGTC+TGG 0.537908 3.2:+78859972 None:intergenic
GGAACAAATGAGCAGGGAGC+AGG 0.543107 3.2:-78860509 MS.gene06524:intron
GGATGGAGAATATGTTGAAG+AGG 0.544093 3.2:-78860121 MS.gene06524:CDS
AGATGCTCAGCTTATACAAG+AGG 0.596458 3.2:-78860554 MS.gene06524:CDS
GATGGAGAATATGTTGAAGA+GGG 0.605246 3.2:-78860120 MS.gene06524:CDS
GCTCTTAGAAGGAAAATTGG+TGG 0.606049 3.2:-78860388 MS.gene06524:CDS
AAAACTTGTATAATAAGGAG+GGG 0.613562 3.2:+78860744 None:intergenic
TCATGTGGCATGTGCAGAGA+AGG 0.614253 3.2:-78860016 MS.gene06524:CDS
CAAGGGTGAAGCAAGACAAG+TGG 0.622923 3.2:-78860058 MS.gene06524:CDS
ATCTGGGGAACAAATGAGCA+GGG 0.636205 3.2:-78860515 MS.gene06524:CDS
TTGGGTAGACAAAACATGCA+AGG 0.654898 3.2:-78860097 MS.gene06524:CDS
TATAAGCTGAGCATCTTGTG+CGG 0.655921 3.2:+78860561 None:intergenic
GCTTGGAAGATATGTTCATG+TGG 0.675569 3.2:-78860031 MS.gene06524:CDS
TAGAGAAGCCACAAAATCTG+GGG 0.684446 3.2:-78860530 MS.gene06524:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAGAAAATGAAAAATGT+TGG + chr3.2:78860490-78860509 None:intergenic 15.0%
!! TAGTTGAATTATATATTGTT+TGG - chr3.2:78860556-78860575 MS.gene06524:CDS 15.0%
!! TCAATTAATTTCATTTCTTA+TGG + chr3.2:78860463-78860482 None:intergenic 15.0%
!! AAAAACTTGTATAATAAGGA+GGG + chr3.2:78860004-78860023 None:intergenic 20.0%
!! GAAGAAAAACTTGTATAATA+AGG + chr3.2:78860008-78860027 None:intergenic 20.0%
!!! TTTTTCAAATCTTATGTTGA+AGG - chr3.2:78860392-78860411 MS.gene06524:CDS 20.0%
!!! TTTTTGTAAATAATGCAGTA+TGG - chr3.2:78860332-78860351 MS.gene06524:intron 20.0%
! AAAACTTGTATAATAAGGAG+GGG + chr3.2:78860003-78860022 None:intergenic 25.0%
! GAAAAACTTGTATAATAAGG+AGG + chr3.2:78860005-78860024 None:intergenic 25.0%
ACTAATCACATGCTTCTTTA+AGG + chr3.2:78860540-78860559 None:intergenic 30.0%
! AGTTTTTCTTCAAAGTCATC+AGG - chr3.2:78860017-78860036 MS.gene06524:CDS 30.0%
AACATGCAAGGTATGCAAAA+AGG - chr3.2:78860659-78860678 MS.gene06524:CDS 35.0%
AGAATATGTTGAAGAGGGTT+GGG - chr3.2:78860629-78860648 MS.gene06524:CDS 35.0%
CTCTTAGAAGGAAAATTGGT+GGG - chr3.2:78860357-78860376 MS.gene06524:CDS 35.0%
GATGGAGAATATGTTGAAGA+GGG - chr3.2:78860624-78860643 MS.gene06524:CDS 35.0%
TTCTTCCTTCTTCTCTTGTT+TGG + chr3.2:78860099-78860118 None:intergenic 35.0%
AGATGCTCAGCTTATACAAG+AGG - chr3.2:78860190-78860209 MS.gene06524:intron 40.0%
CTAGAGAAGCCACAAAATCT+GGG - chr3.2:78860213-78860232 MS.gene06524:intron 40.0%
GAAAATTGGTGGGACTTACA+AGG - chr3.2:78860367-78860386 MS.gene06524:CDS 40.0%
GAGAATATGTTGAAGAGGGT+TGG - chr3.2:78860628-78860647 MS.gene06524:CDS 40.0%
GCTCTTAGAAGGAAAATTGG+TGG - chr3.2:78860356-78860375 MS.gene06524:CDS 40.0%
GCTTGGAAGATATGTTCATG+TGG - chr3.2:78860713-78860732 MS.gene06524:CDS 40.0%
GGAGCTCTTAGAAGGAAAAT+TGG - chr3.2:78860353-78860372 MS.gene06524:CDS 40.0%
GGATGGAGAATATGTTGAAG+AGG - chr3.2:78860623-78860642 MS.gene06524:CDS 40.0%
GTATAATAAGGAGGGGTCAA+TGG + chr3.2:78859996-78860015 None:intergenic 40.0%
GTATGCAAAAAGGACACCAA+GGG - chr3.2:78860669-78860688 MS.gene06524:CDS 40.0%
TAGAGAAGCCACAAAATCTG+GGG - chr3.2:78860214-78860233 MS.gene06524:intron 40.0%
TATAAGCTGAGCATCTTGTG+CGG + chr3.2:78860186-78860205 None:intergenic 40.0%
TTCAGCCAAACAAGAGAAGA+AGG - chr3.2:78860091-78860110 MS.gene06524:CDS 40.0%
TTGGGTAGACAAAACATGCA+AGG - chr3.2:78860647-78860666 MS.gene06524:CDS 40.0%
! AATCTTGTTGTACTGAGCAG+TGG - chr3.2:78860602-78860621 MS.gene06524:CDS 40.0%
! CATTTGTTCCCCAGATTTTG+TGG + chr3.2:78860225-78860244 None:intergenic 40.0%
AATCTGGGGAACAAATGAGC+AGG - chr3.2:78860228-78860247 MS.gene06524:intron 45.0%
ATCTGGGGAACAAATGAGCA+GGG - chr3.2:78860229-78860248 MS.gene06524:intron 45.0%
GCTAGAGAAGCCACAAAATC+TGG - chr3.2:78860212-78860231 MS.gene06524:intron 45.0%
GGTATGCAAAAAGGACACCA+AGG - chr3.2:78860668-78860687 MS.gene06524:CDS 45.0%
TGCAGTATGGAGCTCTTAGA+AGG - chr3.2:78860345-78860364 MS.gene06524:intron 45.0%
TGTGCAGAGAAGGCAAAATC+TGG - chr3.2:78860738-78860757 MS.gene06524:CDS 45.0%
TTGTTGTACTGAGCAGTGGA+TGG - chr3.2:78860606-78860625 MS.gene06524:CDS 45.0%
CAAGGGTGAAGCAAGACAAG+TGG - chr3.2:78860686-78860705 MS.gene06524:CDS 50.0%
CACTTGTCTTGCTTCACCCT+TGG + chr3.2:78860688-78860707 None:intergenic 50.0%
GCAAGACAAGTGGACAAGCT+TGG - chr3.2:78860696-78860715 MS.gene06524:CDS 50.0%
TCATGTGGCATGTGCAGAGA+AGG - chr3.2:78860728-78860747 MS.gene06524:CDS 50.0%
TGAGCATCTTGTGCGGATCT+TGG + chr3.2:78860179-78860198 None:intergenic 50.0%
GGAACAAATGAGCAGGGAGC+AGG - chr3.2:78860235-78860254 MS.gene06524:intron 55.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 78859975 78860791 78859975 ID=MS.gene06524
chr3.2 mRNA 78859975 78860791 78859975 ID=MS.gene06524.t1;Parent=MS.gene06524
chr3.2 exon 78860510 78860791 78860510 ID=MS.gene06524.t1.exon1;Parent=MS.gene06524.t1
chr3.2 CDS 78860510 78860791 78860510 ID=cds.MS.gene06524.t1;Parent=MS.gene06524.t1
chr3.2 exon 78860353 78860416 78860353 ID=MS.gene06524.t1.exon2;Parent=MS.gene06524.t1
chr3.2 CDS 78860353 78860416 78860353 ID=cds.MS.gene06524.t1;Parent=MS.gene06524.t1
chr3.2 exon 78859975 78860144 78859975 ID=MS.gene06524.t1.exon3;Parent=MS.gene06524.t1
chr3.2 CDS 78859975 78860144 78859975 ID=cds.MS.gene06524.t1;Parent=MS.gene06524.t1
Gene Sequence

>MS.gene06524

ATGGGTCTTGGGACTTTGCCATTGACCCCTCCTTATTATACAAGTTTTTCTTCAAAGTCATCAGGACTTGTACATAAAAATACTAATAATTGCAATAGAAGCAAAAAATTCATAGTTTCAGCCAAACAAGAGAAGAAGGAAGAAGATAAGAATAAGCAATCTTTTTTTACTAGTGTAACTGATGCTCTTGATTTTGCTCAACCAAGATCCGCACAAGATGCTCAGCTTATACAAGAGGCTAGAGAAGCCACAAAATCTGGGGAACAAATGAGCAGGGAGCAGGTATATTATAATTAATCTTCTAAACTGTTCATCTTTCATAATCAATAATCTTTATGATTCTCTTTAATTTTTATATTTTTGTAAATAATGCAGTATGGAGCTCTTAGAAGGAAAATTGGTGGGACTTACAAGGATTTTTTCAAATCTTATGTTGAAGGTATAGTTATTATTGTTTTGTAGAGTAGTATATTTATCTTTCAAAGCCATAAGAAATGAAATTAATTGAATAACCAACATTTTTCATTTTCTTATTTTATTAATGAAATTTGATACAATATGTCCTTAAAGAAGCATGTGATTAGTTGAATTATATATTGTTTGGTTTAGAAATATAATTGAAACATTAATCTTGTTGTACTGAGCAGTGGATGGAGAATATGTTGAAGAGGGTTGGGTAGACAAAACATGCAAGGTATGCAAAAAGGACACCAAGGGTGAAGCAAGACAAGTGGACAAGCTTGGAAGATATGTTCATGTGGCATGTGCAGAGAAGGCAAAATCTGGAAACTTCTTTACCAGACTCTTCTCTTTATGA

Protein sequence

>MS.gene06524.t1

MGLGTLPLTPPYYTSFSSKSSGLVHKNTNNCNRSKKFIVSAKQEKKEEDKNKQSFFTSVTDALDFAQPRSAQDAQLIQEAREATKSGEQMSREQYGALRRKIGGTYKDFFKSYVEVDGEYVEEGWVDKTCKVCKKDTKGEARQVDKLGRYVHVACAEKAKSGNFFTRLFSL