AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76907


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76907.t1 MTR_7g007120 68.421 171 9 1 11 136 11 181 1.66e-79 232
MS.gene76907.t1 MTR_7g007200 67.836 171 10 1 11 136 11 181 2.41e-79 232
MS.gene76907.t1 MTR_7g007220 68.421 171 9 1 11 136 11 181 3.46e-79 231
MS.gene76907.t1 MTR_7g007120 68.235 170 9 1 12 136 12 181 7.14e-79 231
MS.gene76907.t1 MTR_7g007120 67.836 171 10 1 11 136 11 181 7.46e-79 231
MS.gene76907.t1 MTR_7g007230 66.471 170 12 1 12 136 12 181 2.13e-76 224
MS.gene76907.t1 MTR_6g018310 62.570 179 21 2 4 136 2 180 3.28e-73 216
MS.gene76907.t1 MTR_6g018300 61.453 179 20 3 4 136 2 177 8.16e-70 207
MS.gene76907.t1 MTR_7g007210 65.584 154 8 1 11 119 11 164 1.18e-65 197
MS.gene76907.t1 MTR_4g127870 52.703 74 35 0 62 135 96 169 6.07e-29 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76907.t1 AT5G38410 53.297 182 35 3 1 136 1 178 2.37e-58 179
MS.gene76907.t1 AT5G38410 51.872 187 35 3 1 136 1 183 1.86e-57 177
MS.gene76907.t1 AT5G38430 52.198 182 37 3 1 136 1 178 1.27e-56 174
MS.gene76907.t1 AT5G38430 52.198 182 37 3 1 136 1 178 1.27e-56 174
MS.gene76907.t1 AT1G67090 52.198 182 37 3 1 136 1 178 1.67e-56 174
MS.gene76907.t1 AT5G38420 52.198 182 37 3 1 136 1 178 2.79e-56 174
MS.gene76907.t1 AT5G38410 53.143 175 39 4 1 136 1 171 1.68e-54 169
MS.gene76907.t1 AT1G67090 41.667 132 55 8 1 131 1 111 1.36e-15 68.9

Find 36 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTTGTTGATCTTTGTAAC+TGG 0.311725 7.2:+91228705 None:intergenic
GGCGCGGTGGCTCCATTTGT+TGG 0.318301 7.2:-91228750 MS.gene76907:CDS
GATACTATGATGGACGTTAC+TGG 0.371866 7.2:-91228046 MS.gene76907:CDS
CGATTCTTCTCAAGTGTTGA+AGG 0.396980 7.2:-91227991 MS.gene76907:CDS
ATGTGGAAGTTGCCTTTGTT+TGG 0.411503 7.2:-91228020 MS.gene76907:CDS
TACAGTTAACCGTGCCTCTT+CGG 0.432912 7.2:-91228781 MS.gene76907:CDS
ATGATACGGACAAAGGCATC+AGG 0.443523 7.2:+91227942 None:intergenic
CTTCAACACTTGAGAAGAAT+CGG 0.461194 7.2:+91227992 None:intergenic
GATGCCTTTGTCCGTATCAT+CGG 0.484184 7.2:-91227939 MS.gene76907:CDS
CGTGCCTCTTCGGTACAATC+TGG 0.487772 7.2:-91228771 MS.gene76907:CDS
CTTTGTTGATCTTTGTAACT+GGG 0.495423 7.2:+91228706 None:intergenic
GTTGGACTAAAGTCCATGGC+TGG 0.513160 7.2:-91228732 MS.gene76907:CDS
TCTCAAATTTAGTAGACTGC+AGG 0.515110 7.2:+91227867 None:intergenic
ATGGACTTTAGTCCAACAAA+TGG 0.519141 7.2:+91228738 None:intergenic
TCTTCCACCATTGCTTGCAA+TGG 0.537419 7.2:+91228674 None:intergenic
CATAGTATCCTGGTGACTTG+TGG 0.542155 7.2:+91228060 None:intergenic
CGTGAGAACCACAAGTCACC+AGG 0.544938 7.2:-91228068 MS.gene76907:CDS
TAACGTCCATCATAGTATCC+TGG 0.569613 7.2:+91228050 None:intergenic
ACTTCCATTGCAAGCAATGG+TGG 0.573273 7.2:-91228678 MS.gene76907:CDS
AAGTCACCAGGATACTATGA+TGG 0.574009 7.2:-91228056 MS.gene76907:CDS
CGTTGTCGAATCCGATGATA+CGG 0.579522 7.2:+91227928 None:intergenic
ATTACTTCCATTGCAAGCAA+TGG 0.582522 7.2:-91228681 MS.gene76907:CDS
ATTTGTTGGACTAAAGTCCA+TGG 0.586371 7.2:-91228736 MS.gene76907:CDS
CGCGCCAGATTGTACCGAAG+AGG 0.592678 7.2:+91228767 None:intergenic
CTGGTGACTTGTGGTTCTCA+CGG 0.595328 7.2:+91228069 None:intergenic
AACTGTAGTCACAGCTGAAG+AGG 0.597051 7.2:+91228797 None:intergenic
GAATCGGTTGCTCCAAACAA+AGG 0.598394 7.2:+91228008 None:intergenic
TTCGGTACAATCTGGCGCGG+TGG 0.607482 7.2:-91228763 MS.gene76907:CDS
TGTAACTGGGAAGCCAGCCA+TGG 0.615947 7.2:+91228719 None:intergenic
AGCTGAAGAGGACATCATAG+AGG 0.638411 7.2:+91228809 None:intergenic
CTCTTCGGTACAATCTGGCG+CGG 0.651184 7.2:-91228766 MS.gene76907:CDS
CAGATTGTACCGAAGAGGCA+CGG 0.652303 7.2:+91228772 None:intergenic
TGGAAGAGTAAACTGCATGC+AGG 0.652563 7.2:-91228658 MS.gene76907:intron
TGATACGGACAAAGGCATCA+GGG 0.656050 7.2:+91227943 None:intergenic
GAATCCGATGATACGGACAA+AGG 0.687909 7.2:+91227935 None:intergenic
ATGGACGTTACTGGACAATG+TGG 0.742197 7.2:-91228037 MS.gene76907:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCAAATTTTGTTCAATTTT+AGG - chr7.2:91228324-91228343 MS.gene76907:intron 15.0%
! AAGAAGTAGAATACCTTATA+AGG - chr7.2:91228422-91228441 MS.gene76907:intron 25.0%
! AGTAAATGAATATTAGACCT+CGG + chr7.2:91228479-91228498 None:intergenic 25.0%
! TTAAAGAGTAACATGTCATA+TGG + chr7.2:91228212-91228231 None:intergenic 25.0%
!! AACGTACATGTTACATATTT+TGG - chr7.2:91228269-91228288 MS.gene76907:intron 25.0%
!!! ATTTTGTTCAATTTTAGGTG+TGG - chr7.2:91228329-91228348 MS.gene76907:intron 25.0%
!!! TGTTTGTTTTGATTTGTACT+TGG - chr7.2:91228575-91228594 MS.gene76907:intron 25.0%
!!! TTACATATTTTGGTACTAGA+AGG - chr7.2:91228279-91228298 MS.gene76907:intron 25.0%
AGTAGAATACCTTATAAGGA+AGG - chr7.2:91228426-91228445 MS.gene76907:intron 30.0%
CTTTGTTGATCTTTGTAACT+GGG + chr7.2:91227988-91228007 None:intergenic 30.0%
GGTTACTTGAATAGCATTAA+AGG - chr7.2:91228300-91228319 MS.gene76907:intron 30.0%
GTAGAATACCTTATAAGGAA+GGG - chr7.2:91228427-91228446 MS.gene76907:intron 30.0%
TCTTTGTTGATCTTTGTAAC+TGG + chr7.2:91227989-91228008 None:intergenic 30.0%
!! ATATAATCGTTGTTTTGTCG+CGG - chr7.2:91228518-91228537 MS.gene76907:intron 30.0%
AATACCTTATAAGGAAGGGA+TGG - chr7.2:91228431-91228450 MS.gene76907:intron 35.0%
ATACCTTATAAGGAAGGGAT+GGG - chr7.2:91228432-91228451 MS.gene76907:intron 35.0%
ATGGACTTTAGTCCAACAAA+TGG + chr7.2:91227956-91227975 None:intergenic 35.0%
ATTACTTCCATTGCAAGCAA+TGG - chr7.2:91228010-91228029 MS.gene76907:CDS 35.0%
CAATCCAAACAAGTCATAGA+AGG + chr7.2:91228088-91228107 None:intergenic 35.0%
CATAGAAGGTGATATAAAGC+AGG + chr7.2:91228074-91228093 None:intergenic 35.0%
CTTCAACACTTGAGAAGAAT+CGG + chr7.2:91228702-91228721 None:intergenic 35.0%
TCAAACTTCTTCTTGCCAAT+AGG + chr7.2:91228358-91228377 None:intergenic 35.0%
! ATTTGTTGGACTAAAGTCCA+TGG - chr7.2:91227955-91227974 MS.gene76907:CDS 35.0%
!! ATCACCTTCTATGACTTGTT+TGG - chr7.2:91228081-91228100 MS.gene76907:CDS 35.0%
AACTTCTTCTTGCCAATAGG+AGG + chr7.2:91228355-91228374 None:intergenic 40.0%
AAGTCACCAGGATACTATGA+TGG - chr7.2:91228635-91228654 MS.gene76907:intron 40.0%
AATTGTTCTCTGGTCAATGG+TGG + chr7.2:91228397-91228416 None:intergenic 40.0%
ACCATTGACCAGAGAACAAT+TGG - chr7.2:91228396-91228415 MS.gene76907:intron 40.0%
ATGTGGAAGTTGCCTTTGTT+TGG - chr7.2:91228671-91228690 MS.gene76907:CDS 40.0%
CAAATTTGTGACTGTGACCT+TGG + chr7.2:91228544-91228563 None:intergenic 40.0%
GTACTTGGTTACTTGCAGAA+AGG - chr7.2:91228590-91228609 MS.gene76907:intron 40.0%
TAACGTCCATCATAGTATCC+TGG + chr7.2:91228644-91228663 None:intergenic 40.0%
TTCTTTCGCCAATTGTTCTC+TGG + chr7.2:91228407-91228426 None:intergenic 40.0%
!! CGATTCTTCTCAAGTGTTGA+AGG - chr7.2:91228700-91228719 MS.gene76907:CDS 40.0%
!! GATACTATGATGGACGTTAC+TGG - chr7.2:91228645-91228664 MS.gene76907:intron 40.0%
AACTGTAGTCACAGCTGAAG+AGG + chr7.2:91227897-91227916 None:intergenic 45.0%
ACTTCCATTGCAAGCAATGG+TGG - chr7.2:91228013-91228032 MS.gene76907:CDS 45.0%
AGCTGAAGAGGACATCATAG+AGG + chr7.2:91227885-91227904 None:intergenic 45.0%
ATGGACGTTACTGGACAATG+TGG - chr7.2:91228654-91228673 MS.gene76907:intron 45.0%
CAACCCATCCCTTCCTTATA+AGG + chr7.2:91228438-91228457 None:intergenic 45.0%
CATAGTATCCTGGTGACTTG+TGG + chr7.2:91228634-91228653 None:intergenic 45.0%
CGTTGTCGAATCCGATGATA+CGG + chr7.2:91228766-91228785 None:intergenic 45.0%
GAATCCGATGATACGGACAA+AGG + chr7.2:91228759-91228778 None:intergenic 45.0%
GAATCGGTTGCTCCAAACAA+AGG + chr7.2:91228686-91228705 None:intergenic 45.0%
GATGCCTTTGTCCGTATCAT+CGG - chr7.2:91228752-91228771 MS.gene76907:CDS 45.0%
GCCAATTGTTCTCTGGTCAA+TGG + chr7.2:91228400-91228419 None:intergenic 45.0%
TACAGTTAACCGTGCCTCTT+CGG - chr7.2:91227910-91227929 MS.gene76907:CDS 45.0%
TCTTCCACCATTGCTTGCAA+TGG + chr7.2:91228020-91228039 None:intergenic 45.0%
TGGAAGAGTAAACTGCATGC+AGG - chr7.2:91228033-91228052 MS.gene76907:CDS 45.0%
!! ATGATACGGACAAAGGCATC+AGG + chr7.2:91228752-91228771 None:intergenic 45.0%
!! TGATACGGACAAAGGCATCA+GGG + chr7.2:91228751-91228770 None:intergenic 45.0%
!! TTTTAGGTGTGGCCTCCTAT+TGG - chr7.2:91228340-91228359 MS.gene76907:intron 45.0%
AGACCTCGGTCTCAAATTCC+AGG + chr7.2:91228465-91228484 None:intergenic 50.0%
CAGATTGTACCGAAGAGGCA+CGG + chr7.2:91227922-91227941 None:intergenic 50.0%
GTTGGACTAAAGTCCATGGC+TGG - chr7.2:91227959-91227978 MS.gene76907:CDS 50.0%
! CTGGTGACTTGTGGTTCTCA+CGG + chr7.2:91228625-91228644 None:intergenic 50.0%
CGTGAGAACCACAAGTCACC+AGG - chr7.2:91228623-91228642 MS.gene76907:intron 55.0%
CGTGCCTCTTCGGTACAATC+TGG - chr7.2:91227920-91227939 MS.gene76907:CDS 55.0%
CTCGGTCTCAAATTCCAGGC+AGG + chr7.2:91228461-91228480 None:intergenic 55.0%
CTCTTCGGTACAATCTGGCG+CGG - chr7.2:91227925-91227944 MS.gene76907:CDS 55.0%
TGTAACTGGGAAGCCAGCCA+TGG + chr7.2:91227975-91227994 None:intergenic 55.0%
! CTGCCTGGAATTTGAGACCG+AGG - chr7.2:91228459-91228478 MS.gene76907:intron 55.0%
!! TCGTTGTTTTGTCGCGGCCA+AGG - chr7.2:91228524-91228543 MS.gene76907:intron 55.0%
CGCGCCAGATTGTACCGAAG+AGG + chr7.2:91227927-91227946 None:intergenic 60.0%
TTCGGTACAATCTGGCGCGG+TGG - chr7.2:91227928-91227947 MS.gene76907:CDS 60.0%
GGCGCGGTGGCTCCATTTGT+TGG - chr7.2:91227941-91227960 MS.gene76907:CDS 65.0%
!! GAAGGGATGGGTTGCCTGCC+TGG - chr7.2:91228444-91228463 MS.gene76907:intron 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 91227875 91228838 91227875 ID=MS.gene76907
chr7.2 mRNA 91227875 91228838 91227875 ID=MS.gene76907.t1;Parent=MS.gene76907
chr7.2 exon 91228659 91228838 91228659 ID=MS.gene76907.t1.exon1;Parent=MS.gene76907.t1
chr7.2 CDS 91228659 91228838 91228659 ID=cds.MS.gene76907.t1;Parent=MS.gene76907.t1
chr7.2 exon 91227875 91228105 91227875 ID=MS.gene76907.t1.exon2;Parent=MS.gene76907.t1
chr7.2 CDS 91227875 91228105 91227875 ID=cds.MS.gene76907.t1;Parent=MS.gene76907.t1
Gene Sequence

>MS.gene76907

ATGGCTTCCTCTATGATGTCCTCTTCAGCTGTGACTACAGTTAACCGTGCCTCTTCGGTACAATCTGGCGCGGTGGCTCCATTTGTTGGACTAAAGTCCATGGCTGGCTTCCCAGTTACAAAGATCAACAAAGACATTACTTCCATTGCAAGCAATGGTGGAAGAGTAAACTGCATGCAGGTGAGAAAAGAATATACCTGCTTTATATCACCTTCTATGACTTGTTTGGATTGAGTTATTTTAGTTTATCTAATGACATAAAACTTATGAGACTACTTAAGAGAGTTTATGAAAACAATTTATGACATGCTCATAAAATATTTTAAGCTTATTTCCATATGACATGTTACTCTTTAATGCTTTTGAAATATGTATTTTTTCATTAGATTTAAAAAACGTACATGTTACATATTTTGGTACTAGAAGGTTACTTGAATAGCATTAAAGGATTCAAATTTTGTTCAATTTTAGGTGTGGCCTCCTATTGGCAAGAAGAAGTTTGAGACTCTTTCATAACTTCCACCATTGACCAGAGAACAATTGGCGAAAGAAGTAGAATACCTTATAAGGAAGGGATGGGTTGCCTGCCTGGAATTTGAGACCGAGGTCTAATATTCATTTACTTGCAATATCTTCTCAATATATATAATCGTTGTTTTGTCGCGGCCAAGGTCACAGTCACAAATTTGTATTTAACATATGTTTGTTTTGATTTGTACTTGGTTACTTGCAGAAAGGATTTGTGTACCGTGAGAACCACAAGTCACCAGGATACTATGATGGACGTTACTGGACAATGTGGAAGTTGCCTTTGTTTGGAGCAACCGATTCTTCTCAAGTGTTGAAGGAGCTTGATGAAGCTATTGCTGCTTACCCTGATGCCTTTGTCCGTATCATCGGATTCGACAACGTTCGTCAAGTTCAATGCATCAGTTTCATTGCACACACACCTGCAGTCTACTAA

Protein sequence

>MS.gene76907.t1

MASSMMSSSAVTTVNRASSVQSGAVAPFVGLKSMAGFPVTKINKDITSIASNGGRVNCMQKGFVYRENHKSPGYYDGRYWTMWKLPLFGATDSSQVLKELDEAIAAYPDAFVRIIGFDNVRQVQCISFIAHTPAVY