AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81367

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81367.t1 MTR_5g094950 67.692 130 20 2 40 147 285 414 1.34e-37 139
MS.gene81367.t1 MTR_5g094970 53.750 80 15 2 40 97 226 305 1.24e-14 73.2
MS.gene81367.t1 MTR_5g094960 31.579 190 100 4 47 210 246 431 9.20e-14 71.2
MS.gene81367.t1 MTR_5g094990 42.982 114 47 3 47 144 240 351 1.48e-12 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 44 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGATAGTAATGCTCTTAA+TGG 0.300446 5.2:-80067472 None:intergenic
GGAAACAGTGAACATGAATT+TGG 0.301643 5.2:-80067086 None:intergenic
TGAATTAGACAATGAAGTTT+TGG 0.307370 5.2:-80067692 None:intergenic
TTATCCTCCAATACGTGCTT+TGG 0.360658 5.2:+80067138 MS.gene81367:CDS
TGAGCTAGAATCTAAAGTTT+TGG 0.370227 5.2:-80067524 None:intergenic
GAAGACGGTCATCACTCTTA+TGG 0.390645 5.2:+80067403 MS.gene81367:CDS
CGAGTAAGATCTCACCTCTT+TGG 0.397674 5.2:-80067198 None:intergenic
CACTCTTATGGAGTAGTTGC+CGG 0.420211 5.2:+80067415 MS.gene81367:CDS
CCTCCAATACGTGCTTTGGC+TGG 0.445507 5.2:+80067142 MS.gene81367:CDS
TTTGGAGTTGGAGAAGTTGA+AGG 0.446585 5.2:-80067506 None:intergenic
TGAGCTGAGGGAATTGTTTG+AGG 0.463166 5.2:-80067840 None:intergenic
ATTCCAGCCAAAGCACGTAT+TGG 0.465538 5.2:-80067145 None:intergenic
TTTGTTCAGCGGCTGAGTAC+CGG 0.478342 5.2:-80067434 None:intergenic
AAAGAGGAATATTGAGCTGA+GGG 0.483756 5.2:-80067852 None:intergenic
GTACTCAGCCGCTGAACAAA+GGG 0.485032 5.2:+80067437 MS.gene81367:CDS
GTGTTGTTCTTCTAAGAAAG+AGG 0.494761 5.2:-80067868 None:intergenic
AATGTTGGTGGCAATGAGGT+TGG 0.498941 5.2:+80067340 MS.gene81367:CDS
CTGAGGGAATTGTTTGAGGA+AGG 0.504261 5.2:-80067836 None:intergenic
TGGAGAAGTTGAAGGAAAAG+TGG 0.505770 5.2:-80067498 None:intergenic
GCATGAAAGAGTTGCAAGGT+TGG 0.521848 5.2:+80067249 MS.gene81367:CDS
TACAAAGAAGAATAATGAGT+TGG 0.524986 5.2:-80067792 None:intergenic
AGTGTAGATGCCTCTGGTGG+TGG 0.536824 5.2:+80067295 MS.gene81367:CDS
TCAATGAGTGTAGATGCCTC+TGG 0.542665 5.2:+80067289 MS.gene81367:CDS
CCAGCCAAAGCACGTATTGG+AGG 0.543415 5.2:-80067142 None:intergenic
GAATAATGAGTTGGAGTGCG+AGG 0.543935 5.2:-80067783 None:intergenic
ATCTACACTCATTGAAAGGT+TGG 0.545608 5.2:-80067281 None:intergenic
GGTACTCAGCCGCTGAACAA+AGG 0.561477 5.2:+80067436 MS.gene81367:CDS
GAGTGGTGAGTTGGAGTGTG+AGG 0.568828 5.2:-80067614 None:intergenic
GAAAGAGGAATATTGAGCTG+AGG 0.592913 5.2:-80067853 None:intergenic
AGAGTTGCAAGGTTGGAGGA+TGG 0.597876 5.2:+80067256 MS.gene81367:CDS
TTCAGAGCATTGCACCAAAG+AGG 0.600944 5.2:+80067184 MS.gene81367:CDS
TCTTTGCTCCCTTTGTTCAG+CGG 0.604084 5.2:-80067445 None:intergenic
CATTGCATGAAAGAGTTGCA+AGG 0.611046 5.2:+80067245 MS.gene81367:CDS
AGGCATCTACACTCATTGAA+AGG 0.614901 5.2:-80067285 None:intergenic
TGAAAGAGTTGCAAGGTTGG+AGG 0.631396 5.2:+80067252 MS.gene81367:CDS
GGTGGAAACGATGACGTGGA+TGG 0.636584 5.2:+80067313 MS.gene81367:CDS
GTGGATGGAGAGAATGTTGG+TGG 0.665079 5.2:+80067328 MS.gene81367:CDS
ATGAGTGTAGATGCCTCTGG+TGG 0.681194 5.2:+80067292 MS.gene81367:CDS
AGAGAATGTTGGTGGCAATG+AGG 0.682533 5.2:+80067336 MS.gene81367:CDS
GACGTGGATGGAGAGAATGT+TGG 0.683270 5.2:+80067325 MS.gene81367:CDS
TGAGGTTGGAAATGACATTG+TGG 0.683603 5.2:+80067354 MS.gene81367:CDS
TGGTGGTGGAAACGATGACG+TGG 0.695643 5.2:+80067309 MS.gene81367:CDS
TCTTTGCAGAGAAACGAAGA+CGG 0.696340 5.2:+80067388 MS.gene81367:CDS
GTCATCGTTTCCACCACCAG+AGG 0.705777 5.2:-80067305 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAAAAAAAATGCTTTAAAAA+TGG - chr5.2:80067121-80067140 None:intergenic 10.0%
! GAAGAAGTTGAAAGAAAAAA+GGG - chr5.2:80067762-80067781 None:intergenic 25.0%
! GATGTGTTAAGAAAAAAGAA+TGG - chr5.2:80067718-80067737 None:intergenic 25.0%
! TACAAAGAAGAATAATGAGT+TGG - chr5.2:80067795-80067814 None:intergenic 25.0%
! TGAAGAAGTTGAAAGAAAAA+AGG - chr5.2:80067763-80067782 None:intergenic 25.0%
! TGAGAAATTGAAGCAAAAAA+TGG - chr5.2:80067593-80067612 None:intergenic 25.0%
!! TGAATTAGACAATGAAGTTT+TGG - chr5.2:80067695-80067714 None:intergenic 25.0%
AAGTTGAAAGAAAAAAGGGT+TGG - chr5.2:80067758-80067777 None:intergenic 30.0%
GAAATTGAAGCAAAAAATGG+TGG - chr5.2:80067590-80067609 None:intergenic 30.0%
GAACGAAAACAGAAAATTAG+TGG - chr5.2:80067047-80067066 None:intergenic 30.0%
GATATGCTAAAAACAAAGAG+TGG - chr5.2:80067634-80067653 None:intergenic 30.0%
GATGATAGTAATGCTCTTAA+TGG - chr5.2:80067475-80067494 None:intergenic 30.0%
! ATTAGTGGATGAGAAATGTA+AGG - chr5.2:80067032-80067051 None:intergenic 30.0%
! CTTTAAAAATGGCGAATTGA+AGG - chr5.2:80067110-80067129 None:intergenic 30.0%
! TTAGTGGATGAGAAATGTAA+GGG - chr5.2:80067031-80067050 None:intergenic 30.0%
! TTTGGAGTTGAAGGAAAAAA+GGG - chr5.2:80067677-80067696 None:intergenic 30.0%
!! TGAGCTAGAATCTAAAGTTT+TGG - chr5.2:80067527-80067546 None:intergenic 30.0%
!!! AGAATCTAAAGTTTTGGAGT+TGG - chr5.2:80067521-80067540 None:intergenic 30.0%
!!! TTTTGGAGTTGAAGGAAAAA+AGG - chr5.2:80067678-80067697 None:intergenic 30.0%
AAAAACAAAGAGTGGTGAGT+TGG - chr5.2:80067626-80067645 None:intergenic 35.0%
AAAGAGGAATATTGAGCTGA+GGG - chr5.2:80067855-80067874 None:intergenic 35.0%
AAGAAAAAAGGGTTGGATGA+TGG - chr5.2:80067751-80067770 None:intergenic 35.0%
AGAAAAAAGGGTTGGATGAT+GGG - chr5.2:80067750-80067769 None:intergenic 35.0%
ATCTACACTCATTGAAAGGT+TGG - chr5.2:80067284-80067303 None:intergenic 35.0%
GGAAACAGTGAACATGAATT+TGG - chr5.2:80067089-80067108 None:intergenic 35.0%
! AAGCAAAAAATGGTGGAAGA+TGG - chr5.2:80067583-80067602 None:intergenic 35.0%
!!! CAATGAAGTTTTGGAGTTGA+AGG - chr5.2:80067686-80067705 None:intergenic 35.0%
AGGCATCTACACTCATTGAA+AGG - chr5.2:80067288-80067307 None:intergenic 40.0%
CATTGCATGAAAGAGTTGCA+AGG + chr5.2:80067245-80067264 MS.gene81367:CDS 40.0%
GAAAGAGGAATATTGAGCTG+AGG - chr5.2:80067856-80067875 None:intergenic 40.0%
TCTTTGCAGAGAAACGAAGA+CGG + chr5.2:80067388-80067407 MS.gene81367:CDS 40.0%
TGAGGTTGGAAATGACATTG+TGG + chr5.2:80067354-80067373 MS.gene81367:CDS 40.0%
TGGAGAAGTTGAAGGAAAAG+TGG - chr5.2:80067501-80067520 None:intergenic 40.0%
TTATCCTCCAATACGTGCTT+TGG + chr5.2:80067138-80067157 MS.gene81367:CDS 40.0%
! TTTGGAGTTGGAGAAGTTGA+AGG - chr5.2:80067509-80067528 None:intergenic 40.0%
ATTCCAGCCAAAGCACGTAT+TGG - chr5.2:80067148-80067167 None:intergenic 45.0%
CACTCTTATGGAGTAGTTGC+CGG + chr5.2:80067415-80067434 MS.gene81367:CDS 45.0%
CGAGTAAGATCTCACCTCTT+TGG - chr5.2:80067201-80067220 None:intergenic 45.0%
CTGAGGGAATTGTTTGAGGA+AGG - chr5.2:80067839-80067858 None:intergenic 45.0%
GAAGACGGTCATCACTCTTA+TGG + chr5.2:80067403-80067422 MS.gene81367:CDS 45.0%
GCATGAAAGAGTTGCAAGGT+TGG + chr5.2:80067249-80067268 MS.gene81367:CDS 45.0%
GGAGTTGAAGGAAAAAAGGG+TGG - chr5.2:80067674-80067693 None:intergenic 45.0%
TCAATGAGTGTAGATGCCTC+TGG + chr5.2:80067289-80067308 MS.gene81367:CDS 45.0%
TCTTTGCTCCCTTTGTTCAG+CGG - chr5.2:80067448-80067467 None:intergenic 45.0%
TGAAAGAGTTGCAAGGTTGG+AGG + chr5.2:80067252-80067271 MS.gene81367:CDS 45.0%
TGAGCTGAGGGAATTGTTTG+AGG - chr5.2:80067843-80067862 None:intergenic 45.0%
TGGCAATTATAAGCGAGCTG+AGG - chr5.2:80067069-80067088 None:intergenic 45.0%
! GAATAATGAGTTGGAGTGCG+AGG - chr5.2:80067786-80067805 None:intergenic 45.0%
!! AATGTTGGTGGCAATGAGGT+TGG + chr5.2:80067340-80067359 MS.gene81367:CDS 45.0%
!! AGAGAATGTTGGTGGCAATG+AGG + chr5.2:80067336-80067355 MS.gene81367:CDS 45.0%
!! TTCAGAGCATTGCACCAAAG+AGG + chr5.2:80067184-80067203 MS.gene81367:CDS 45.0%
AGAGTTGCAAGGTTGGAGGA+TGG + chr5.2:80067256-80067275 MS.gene81367:CDS 50.0%
ATGAGTGTAGATGCCTCTGG+TGG + chr5.2:80067292-80067311 MS.gene81367:CDS 50.0%
GACGTGGATGGAGAGAATGT+TGG + chr5.2:80067325-80067344 MS.gene81367:CDS 50.0%
GTACTCAGCCGCTGAACAAA+GGG + chr5.2:80067437-80067456 MS.gene81367:CDS 50.0%
GTGGATGGAGAGAATGTTGG+TGG + chr5.2:80067328-80067347 MS.gene81367:CDS 50.0%
TTTGTTCAGCGGCTGAGTAC+CGG - chr5.2:80067437-80067456 None:intergenic 50.0%
AGTGTAGATGCCTCTGGTGG+TGG + chr5.2:80067295-80067314 MS.gene81367:CDS 55.0%
CCAGCCAAAGCACGTATTGG+AGG - chr5.2:80067145-80067164 None:intergenic 55.0%
CCTCCAATACGTGCTTTGGC+TGG + chr5.2:80067142-80067161 MS.gene81367:CDS 55.0%
GGTACTCAGCCGCTGAACAA+AGG + chr5.2:80067436-80067455 MS.gene81367:CDS 55.0%
GGTGGAAACGATGACGTGGA+TGG + chr5.2:80067313-80067332 MS.gene81367:CDS 55.0%
GTCATCGTTTCCACCACCAG+AGG - chr5.2:80067308-80067327 None:intergenic 55.0%
! GAGTGGTGAGTTGGAGTGTG+AGG - chr5.2:80067617-80067636 None:intergenic 55.0%
!! TGGTGGTGGAAACGATGACG+TGG + chr5.2:80067309-80067328 MS.gene81367:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 80066982 80067879 80066982 ID=MS.gene81367
chr5.2 mRNA 80066982 80067879 80066982 ID=MS.gene81367.t1;Parent=MS.gene81367
chr5.2 exon 80066982 80067016 80066982 ID=MS.gene81367.t1.exon1;Parent=MS.gene81367.t1
chr5.2 CDS 80066982 80067016 80066982 ID=cds.MS.gene81367.t1;Parent=MS.gene81367.t1
chr5.2 exon 80067072 80067879 80067072 ID=MS.gene81367.t1.exon2;Parent=MS.gene81367.t1
chr5.2 CDS 80067072 80067879 80067072 ID=cds.MS.gene81367.t1;Parent=MS.gene81367.t1
Gene Sequence

>MS.gene81367

ATGCAATGCTCTGAACTTTGTGTTCAAAGACTCGAGTAAGATCTCACCCTTACATTTCTCATCCACTAATTTTCTGTTTTCGTTCCTCAGCTCGCTTATAATTGCCAAATTCATGTTCACTGTTTCCTTCAATTCGCCATTTTTAAAGCATTTTTTTTATCCTCCAATACGTGCTTTGGCTGGAATTGAGATTAAAACAAAGTTCAGAGCATTGCACCAAAGAGGTGAGATCTTACTCGAGTCTTTGAACACAAAGTTCATAACATTGCATGAAAGAGTTGCAAGGTTGGAGGATGGTTCCAACCTTTCAATGAGTGTAGATGCCTCTGGTGGTGGAAACGATGACGTGGATGGAGAGAATGTTGGTGGCAATGAGGTTGGAAATGACATTGTGGAGAAGTCTACTTCTTTGCAGAGAAACGAAGACGGTCATCACTCTTATGGAGTAGTTGCCGGTACTCAGCCGCTGAACAAAGGGAGCAAAGATGCACCATTAAGAGCATTACTATCATCTAGCCACTTTTCCTTCAACTTCTCCAACTCCAAAACTTTAGATTCTAGCTCACAGTTCTTTGTTTTTAGCACATCAAGTGCATTTCCATCTTCCACCATTTTTTGCTTCAATTTCTCAACCTCACACTCCAACTCACCACTCTTTGTTTTTAGCATATCAAGTGCATTCTCATCTTCCACCCTTTTTTCCTTCAACTCCAAAACTTCATTGTCTAATTCACCATTCTTTTTTCTTAACACATCTAGTTCATTCCCATCATCCAACCCTTTTTTCTTTCAACTTCTTCACCTCGCACTCCAACTCATTATTCTTCTTTGTAAGCTCTCTAATAATTACGTTACCTTCCTCAAACAATTCCCTCAGCTCAATATTCCTCTTTCTTAG
Protein sequence

>MS.gene81367.t1

MQCSELCVQRLDSLIIAKFMFTVSFNSPFLKHFFYPPIRALAGIEIKTKFRALHQRGEILLESLNTKFITLHERVARLEDGSNLSMSVDASGGGNDDVDGENVGGNEVGNDIVEKSTSLQRNEDGHHSYGVVAGTQPLNKGSKDAPLRALLSSSHFSFNFSNSKTLDSSSQFFVFSTSSAFPSSTIFCFNFSTSHSNSPLFVFSISSAFSSSTLFSFNSKTSLSNSPFFFLNTSSSFPSSNPFFFQLLHLALQLIILLCKLSNNYVTFLKQFPQLNIPLS