AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene007154

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.gene007154.t1 AT5G22250 64.552 268 90 4 23 287 12 277 1.91e-118 341
MS.gene007154.t1 AT3G44260 63.941 269 89 5 22 287 16 279 2.62e-116 336
MS.gene007154.t1 AT1G15920 49.091 275 133 4 15 286 6 276 1.63e-92 276
MS.gene007154.t1 AT1G15920 49.091 275 133 4 15 286 6 276 1.63e-92 276
MS.gene007154.t1 AT5G10960 53.184 267 116 5 22 287 9 267 6.44e-92 274
MS.gene007154.t1 AT2G32070 52.060 267 120 5 22 287 9 268 9.33e-92 273
MS.gene007154.t1 AT1G80780 50.752 266 124 4 22 287 9 267 3.76e-88 264
MS.gene007154.t1 AT1G80780 50.752 266 124 4 22 287 9 267 3.76e-88 264
MS.gene007154.t1 AT1G80780 50.752 266 124 4 22 287 9 267 4.93e-88 264
MS.gene007154.t1 AT1G06450 35.581 267 147 9 24 285 8 254 2.31e-42 149
MS.gene007154.t1 AT1G61470 33.333 246 141 6 24 264 1 228 3.33e-34 125
MS.gene007154.t1 AT1G27820 34.553 246 144 5 22 264 3 234 7.07e-34 125
MS.gene007154.t1 AT1G27890 34.167 240 141 5 28 264 4 229 1.12e-30 117
MS.gene007154.t1 AT3G44240 34.649 228 132 7 39 264 3 215 1.17e-28 110

Find 63 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGCTGAAAATAGTTATATT+TGG 0.169182 7.3:-8760493 MS.gene007154:CDS
TTCATAGCGCGTATGATTTC+GGG 0.198581 7.3:-8760286 MS.gene007154:CDS
TTTCATAGCGCGTATGATTT+CGG 0.217598 7.3:-8760287 MS.gene007154:CDS
TTGAAGGTGGAGAGGCTTAT+AGG 0.219054 7.3:-8760104 MS.gene007154:CDS
CGCGTATGATTTCGGGTATT+TGG 0.234953 7.3:-8760279 MS.gene007154:CDS
TGAAGGTGGAGAGGCTTATA+GGG 0.242741 7.3:-8760103 MS.gene007154:CDS
TGTAAGAATGGAACCATTAC+TGG 0.287488 7.3:+8760763 None:intergenic
GAAGCTGTTACCGGATGATT+TGG 0.329254 7.3:-8760240 MS.gene007154:CDS
TGCTGAAAATAGTTATATTT+GGG 0.331814 7.3:-8760492 MS.gene007154:CDS
TTTGTGCTGATTCTGTTAGC+TGG 0.344952 7.3:-8760316 MS.gene007154:CDS
TCAAATCTTGATAACGAATT+CGG 0.346517 7.3:-8760725 MS.gene007154:CDS
TTAACTCTTTCTGATCATAA+AGG 0.384845 7.3:-8760533 MS.gene007154:CDS
GTGATTGTGAGGGCGGATTC+CGG 0.425277 7.3:-8760641 MS.gene007154:CDS
CTGATTCTGTTGAGTTGTTG+AGG 0.433052 7.3:-8760424 MS.gene007154:CDS
AAAGAGGAATCGATTCCGTT+AGG 0.437401 7.3:+8760795 None:intergenic
TCAATGGACACGGAGTTTCC+CGG 0.451307 7.3:-8760665 MS.gene007154:CDS
ATATCAGAGAGCTTTACTTC+GGG 0.453384 7.3:-8760028 MS.gene007154:CDS
AGGTTGAATTTGATTCAGAT+TGG 0.457708 7.3:-8760557 MS.gene007154:CDS
CCACACTGATCTTGTAAGAA+TGG 0.461921 7.3:+8760751 None:intergenic
GGTTGAATTTGATTCAGATT+GGG 0.466535 7.3:-8760556 MS.gene007154:CDS
GTTGATGATGTCGTCCGGTT+TGG 0.470458 7.3:-8760339 MS.gene007154:CDS
ATTTGCATGGTGGATTGGAT+AGG 0.470548 7.3:-8760139 MS.gene007154:CDS
TGTTGAAAGCGAATGTTGAT+AGG 0.470879 7.3:-8760577 MS.gene007154:CDS
AAGAGGAATCGATTCCGTTA+GGG 0.475020 7.3:+8760796 None:intergenic
TACGAATTTGCATGGTGGAT+TGG 0.478435 7.3:-8760144 MS.gene007154:CDS
TTGTGCTGATTCTGTTAGCT+GGG 0.481953 7.3:-8760315 MS.gene007154:CDS
TCAGTATCCGCTAATTTCAA+TGG 0.486009 7.3:-8760681 MS.gene007154:CDS
CTTTCACCACGATCCAGTAA+TGG 0.491979 7.3:-8760776 MS.gene007154:CDS
GAAGAGTCATCAAGCAGGTT+CGG 0.492158 7.3:-8760081 MS.gene007154:CDS
TTGAGAAGAATCGTGAGTGT+GGG 0.492422 7.3:-8760385 MS.gene007154:CDS
AATATCAGAGAGCTTTACTT+CGG 0.499438 7.3:-8760029 MS.gene007154:CDS
TAGGGTTTGCAAGAGTTTGA+AGG 0.503822 7.3:-8760120 MS.gene007154:CDS
GCTGACGCAGAAGCTGTTAC+CGG 0.505236 7.3:-8760249 MS.gene007154:CDS
TTTGCATGGTGGATTGGATA+GGG 0.507227 7.3:-8760138 MS.gene007154:CDS
AAATATGCCGGTGTATTGTA+TGG 0.511609 7.3:-8759987 MS.gene007154:CDS
AGTTTCCCGGTGTGATTGTG+AGG 0.516131 7.3:-8760652 MS.gene007154:CDS
AGAATCAGCACAAACCAAAC+CGG 0.520363 7.3:+8760325 None:intergenic
TTTACTTCGGGAAAGCAGAC+GGG 0.525168 7.3:-8760016 MS.gene007154:CDS
GTTGTTGAACGGCGAATCAC+CGG 0.531299 7.3:+8760622 None:intergenic
GGTTTGCAAGAGTTTGAAGG+TGG 0.534617 7.3:-8760117 MS.gene007154:CDS
CTTTACTTCGGGAAAGCAGA+CGG 0.534703 7.3:-8760017 MS.gene007154:CDS
GCTGTTACCGGATGATTTGG+AGG 0.539995 7.3:-8760237 MS.gene007154:CDS
GACGGGTTTGTCAAATATGC+CGG 0.543121 7.3:-8759999 MS.gene007154:CDS
GCTGAGTTGATGATGTCGTC+CGG 0.548614 7.3:-8760344 MS.gene007154:CDS
CACGCGCCACGGTTGTTGAA+CGG 0.548659 7.3:+8760611 None:intergenic
TTACTGGATCGTGGTGAAAG+AGG 0.558261 7.3:+8760779 None:intergenic
GTTGAGTTGTTGAGGAGACA+AGG 0.563888 7.3:-8760416 MS.gene007154:CDS
GTTTCCCGGTGTGATTGTGA+GGG 0.568400 7.3:-8760651 MS.gene007154:CDS
TTTGAGAAGAATCGTGAGTG+TGG 0.568643 7.3:-8760386 MS.gene007154:CDS
TCCCGGTGTGATTGTGAGGG+CGG 0.571114 7.3:-8760648 MS.gene007154:CDS
GCAAGAGTTTGAAGGTGGAG+AGG 0.582586 7.3:-8760112 MS.gene007154:CDS
TCCGTGTCCATTGAAATTAG+CGG 0.591513 7.3:+8760674 None:intergenic
TTGAGTTGTTGAGGAGACAA+GGG 0.608645 7.3:-8760415 MS.gene007154:CDS
TCGATGTGAAGCATTTGATG+AGG 0.612916 7.3:-8760172 MS.gene007154:CDS
TTCTAATCCATACAATACAC+CGG 0.622880 7.3:+8759980 None:intergenic
ATCCGCCCTCACAATCACAC+CGG 0.630220 7.3:+8760646 None:intergenic
TCCGCTAATTTCAATGGACA+CGG 0.632987 7.3:-8760675 MS.gene007154:CDS
CTGCATAGAGACACGCGCCA+CGG 0.638041 7.3:+8760600 None:intergenic
TCCGCCCTCACAATCACACC+GGG 0.638539 7.3:+8760647 None:intergenic
ATAGGGAAGAGTCATCAAGC+AGG 0.666021 7.3:-8760086 MS.gene007154:CDS
ATGGAACCATTACTGGATCG+TGG 0.673080 7.3:+8760770 None:intergenic
GATTCGCCGTTCAACAACCG+TGG 0.678487 7.3:-8760617 MS.gene007154:CDS
CCATTCTTACAAGATCAGTG+TGG 0.730924 7.3:-8760751 MS.gene007154:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGCTGAAAATAGTTATATT+TGG - chr7.3:8760293-8760312 MS.gene007154:CDS 20.0%
!! TGCTGAAAATAGTTATATTT+GGG - chr7.3:8760294-8760313 MS.gene007154:CDS 20.0%
!!! TAATTTTAAGGATTTTGATG+TGG - chr7.3:8760321-8760340 MS.gene007154:CDS 20.0%
!!! TATTTGGGAGTTTAATTTTA+AGG - chr7.3:8760309-8760328 MS.gene007154:CDS 20.0%
! TTAACTCTTTCTGATCATAA+AGG - chr7.3:8760253-8760272 MS.gene007154:CDS 25.0%
!!! TCAAATCTTGATAACGAATT+CGG - chr7.3:8760061-8760080 MS.gene007154:CDS 25.0%
AATATCAGAGAGCTTTACTT+CGG - chr7.3:8760757-8760776 MS.gene007154:CDS 30.0%
AGGTTGAATTTGATTCAGAT+TGG - chr7.3:8760229-8760248 MS.gene007154:CDS 30.0%
GGTTGAATTTGATTCAGATT+GGG - chr7.3:8760230-8760249 MS.gene007154:CDS 30.0%
TTCTAATCCATACAATACAC+CGG + chr7.3:8760809-8760828 None:intergenic 30.0%
! CTATTTTCAGCATCTAACAT+TGG + chr7.3:8760286-8760305 None:intergenic 30.0%
AAAAACTCCTCCAAATCATC+CGG + chr7.3:8760559-8760578 None:intergenic 35.0%
AAATATGCCGGTGTATTGTA+TGG - chr7.3:8760799-8760818 MS.gene007154:CDS 35.0%
ATATCAGAGAGCTTTACTTC+GGG - chr7.3:8760758-8760777 MS.gene007154:CDS 35.0%
TAACCGCAAAAAAACCCTAA+CGG - chr7.3:8759976-8759995 MS.gene007154:CDS 35.0%
TCAGTATCCGCTAATTTCAA+TGG - chr7.3:8760105-8760124 MS.gene007154:CDS 35.0%
TGTAAGAATGGAACCATTAC+TGG + chr7.3:8760026-8760045 None:intergenic 35.0%
TGTTGAAAGCGAATGTTGAT+AGG - chr7.3:8760209-8760228 MS.gene007154:CDS 35.0%
TTTCATAGCGCGTATGATTT+CGG - chr7.3:8760499-8760518 MS.gene007154:CDS 35.0%
! TTTTGTACGAATTTGCATGG+TGG - chr7.3:8760637-8760656 MS.gene007154:CDS 35.0%
!! AGGTTTTGTACGAATTTGCA+TGG - chr7.3:8760634-8760653 MS.gene007154:CDS 35.0%
!! ATGATTTGGAGGAGTTTTTG+AGG - chr7.3:8760560-8760579 MS.gene007154:CDS 35.0%
!!! ATTCCGTTAGGGTTTTTTTG+CGG + chr7.3:8759982-8760001 None:intergenic 35.0%
AGAATCAGCACAAACCAAAC+CGG + chr7.3:8760464-8760483 None:intergenic 40.0%
CCACACTGATCTTGTAAGAA+TGG + chr7.3:8760038-8760057 None:intergenic 40.0%
CCATTCTTACAAGATCAGTG+TGG - chr7.3:8760035-8760054 MS.gene007154:CDS 40.0%
TAGGGTTTGCAAGAGTTTGA+AGG - chr7.3:8760666-8760685 MS.gene007154:CDS 40.0%
TCCGCTAATTTCAATGGACA+CGG - chr7.3:8760111-8760130 MS.gene007154:CDS 40.0%
TCCGTGTCCATTGAAATTAG+CGG + chr7.3:8760115-8760134 None:intergenic 40.0%
TTCATAGCGCGTATGATTTC+GGG - chr7.3:8760500-8760519 MS.gene007154:CDS 40.0%
TTGAGAAGAATCGTGAGTGT+GGG - chr7.3:8760401-8760420 MS.gene007154:CDS 40.0%
TTTGAGAAGAATCGTGAGTG+TGG - chr7.3:8760400-8760419 MS.gene007154:CDS 40.0%
! AAAGAGGAATCGATTCCGTT+AGG + chr7.3:8759994-8760013 None:intergenic 40.0%
! AAGAGGAATCGATTCCGTTA+GGG + chr7.3:8759993-8760012 None:intergenic 40.0%
! CTGATTCTGTTGAGTTGTTG+AGG - chr7.3:8760362-8760381 MS.gene007154:CDS 40.0%
! TCGATGTGAAGCATTTGATG+AGG - chr7.3:8760614-8760633 MS.gene007154:CDS 40.0%
! TTGAGTTGTTGAGGAGACAA+GGG - chr7.3:8760371-8760390 MS.gene007154:CDS 40.0%
!! ATTTGCATGGTGGATTGGAT+AGG - chr7.3:8760647-8760666 MS.gene007154:CDS 40.0%
!! TACGAATTTGCATGGTGGAT+TGG - chr7.3:8760642-8760661 MS.gene007154:CDS 40.0%
!! TTGTGCTGATTCTGTTAGCT+GGG - chr7.3:8760471-8760490 MS.gene007154:CDS 40.0%
!! TTTGCATGGTGGATTGGATA+GGG - chr7.3:8760648-8760667 MS.gene007154:CDS 40.0%
!! TTTGTGCTGATTCTGTTAGC+TGG - chr7.3:8760470-8760489 MS.gene007154:CDS 40.0%
!!! GAAGGTGTTTTTCGGTGATA+TGG - chr7.3:8760588-8760607 MS.gene007154:CDS 40.0%
ATAGGGAAGAGTCATCAAGC+AGG - chr7.3:8760700-8760719 MS.gene007154:CDS 45.0%
ATGGAACCATTACTGGATCG+TGG + chr7.3:8760019-8760038 None:intergenic 45.0%
CTTTACTTCGGGAAAGCAGA+CGG - chr7.3:8760769-8760788 MS.gene007154:CDS 45.0%
CTTTCACCACGATCCAGTAA+TGG - chr7.3:8760010-8760029 MS.gene007154:CDS 45.0%
GAAGAGTCATCAAGCAGGTT+CGG - chr7.3:8760705-8760724 MS.gene007154:CDS 45.0%
GAAGCTGTTACCGGATGATT+TGG - chr7.3:8760546-8760565 MS.gene007154:CDS 45.0%
GGTTTGCAAGAGTTTGAAGG+TGG - chr7.3:8760669-8760688 MS.gene007154:CDS 45.0%
TGAAGGTGGAGAGGCTTATA+GGG - chr7.3:8760683-8760702 MS.gene007154:CDS 45.0%
TTACTGGATCGTGGTGAAAG+AGG + chr7.3:8760010-8760029 None:intergenic 45.0%
TTGAAGGTGGAGAGGCTTAT+AGG - chr7.3:8760682-8760701 MS.gene007154:CDS 45.0%
TTTACTTCGGGAAAGCAGAC+GGG - chr7.3:8760770-8760789 MS.gene007154:CDS 45.0%
! CGCGTATGATTTCGGGTATT+TGG - chr7.3:8760507-8760526 MS.gene007154:CDS 45.0%
! GACGGGTTTGTCAAATATGC+CGG - chr7.3:8760787-8760806 MS.gene007154:CDS 45.0%
! GTTGAGTTGTTGAGGAGACA+AGG - chr7.3:8760370-8760389 MS.gene007154:CDS 45.0%
!!! AGGCTGGTGAAGGTGTTTTT+CGG - chr7.3:8760580-8760599 MS.gene007154:CDS 45.0%
!!! TTTGGAGGAGTTTTTGAGGC+TGG - chr7.3:8760564-8760583 MS.gene007154:CDS 45.0%
AGTTTCCCGGTGTGATTGTG+AGG - chr7.3:8760134-8760153 MS.gene007154:CDS 50.0%
GCAAGAGTTTGAAGGTGGAG+AGG - chr7.3:8760674-8760693 MS.gene007154:CDS 50.0%
GTTGTTGAACGGCGAATCAC+CGG + chr7.3:8760167-8760186 None:intergenic 50.0%
GTTTCCCGGTGTGATTGTGA+GGG - chr7.3:8760135-8760154 MS.gene007154:CDS 50.0%
TCAATGGACACGGAGTTTCC+CGG - chr7.3:8760121-8760140 MS.gene007154:CDS 50.0%
! GCTGTTACCGGATGATTTGG+AGG - chr7.3:8760549-8760568 MS.gene007154:CDS 50.0%
!! GCTGAGTTGATGATGTCGTC+CGG - chr7.3:8760442-8760461 MS.gene007154:CDS 50.0%
!! GTTGATGATGTCGTCCGGTT+TGG - chr7.3:8760447-8760466 MS.gene007154:CDS 50.0%
!!! GGAGTTTTTGAGGCTGGTGA+AGG - chr7.3:8760570-8760589 MS.gene007154:CDS 50.0%
ATCCGCCCTCACAATCACAC+CGG + chr7.3:8760143-8760162 None:intergenic 55.0%
GATTCGCCGTTCAACAACCG+TGG - chr7.3:8760169-8760188 MS.gene007154:CDS 55.0%
GCTGACGCAGAAGCTGTTAC+CGG - chr7.3:8760537-8760556 MS.gene007154:CDS 55.0%
! GTGATTGTGAGGGCGGATTC+CGG - chr7.3:8760145-8760164 MS.gene007154:CDS 55.0%
CACGCGCCACGGTTGTTGAA+CGG + chr7.3:8760178-8760197 None:intergenic 60.0%
CTGCATAGAGACACGCGCCA+CGG + chr7.3:8760189-8760208 None:intergenic 60.0%
TCCCGGTGTGATTGTGAGGG+CGG - chr7.3:8760138-8760157 MS.gene007154:CDS 60.0%
TCCGCCCTCACAATCACACC+GGG + chr7.3:8760142-8760161 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 8759971 8760837 8759971 ID=MS.gene007154
chr7.3 mRNA 8759971 8760837 8759971 ID=MS.gene007154.t1;Parent=MS.gene007154
chr7.3 exon 8759971 8760837 8759971 ID=MS.gene007154.t1.exon1;Parent=MS.gene007154.t1
chr7.3 CDS 8759971 8760837 8759971 ID=cds.MS.gene007154.t1;Parent=MS.gene007154.t1
Gene Sequence

>MS.gene007154

ATGTGTAACCGCAAAAAAACCCTAACGGAATCGATTCCTCTTTCACCACGATCCAGTAATGGTTCCATTCTTACAAGATCAGTGTGGAGTTCAAATCTTGATAACGAATTCGGTTTGATTCGATCGTTAATCGATCAGTATCCGCTAATTTCAATGGACACGGAGTTTCCCGGTGTGATTGTGAGGGCGGATTCCGGTGATTCGCCGTTCAACAACCGTGGCGCGTGTCTCTATGCAGTGTTGAAAGCGAATGTTGATAGGTTGAATTTGATTCAGATTGGGTTAACTCTTTCTGATCATAAAGGTAATCTTCCAATGTTAGATGCTGAAAATAGTTATATTTGGGAGTTTAATTTTAAGGATTTTGATGTGGCTCGTGATGATCACGCTGCTGATTCTGTTGAGTTGTTGAGGAGACAAGGGATTGATTTTGAGAAGAATCGTGAGTGTGGGATTGATTCTGTTAAGTTTGCTGAGTTGATGATGTCGTCCGGTTTGGTTTGTGCTGATTCTGTTAGCTGGGTAACGTTTCATAGCGCGTATGATTTCGGGTATTTGGTGAAATTGCTGACGCAGAAGCTGTTACCGGATGATTTGGAGGAGTTTTTGAGGCTGGTGAAGGTGTTTTTCGGTGATATGGTATTCGATGTGAAGCATTTGATGAGGTTTTGTACGAATTTGCATGGTGGATTGGATAGGGTTTGCAAGAGTTTGAAGGTGGAGAGGCTTATAGGGAAGAGTCATCAAGCAGGTTCGGATAGTTTGCTTACTTTGCATGCTTTTCAGAATATCAGAGAGCTTTACTTCGGGAAAGCAGACGGGTTTGTCAAATATGCCGGTGTATTGTATGGATTAGAAGTTTGCTGA
Protein sequence

>MS.gene007154.t1

MCNRKKTLTESIPLSPRSSNGSILTRSVWSSNLDNEFGLIRSLIDQYPLISMDTEFPGVIVRADSGDSPFNNRGACLYAVLKANVDRLNLIQIGLTLSDHKGNLPMLDAENSYIWEFNFKDFDVARDDHAADSVELLRRQGIDFEKNRECGIDSVKFAELMMSSGLVCADSVSWVTFHSAYDFGYLVKLLTQKLLPDDLEEFLRLVKVFFGDMVFDVKHLMRFCTNLHGGLDRVCKSLKVERLIGKSHQAGSDSLLTLHAFQNIRELYFGKADGFVKYAGVLYGLEVC