AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36318

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36318.t1 MTR_6g081160 32.500 320 112 10 20 283 1 272 2.28e-26 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATACAAGGTAGTTATAAT+AGG 0.224337 2.2:-1929220 MS.gene36318:CDS
CATGATGAAGTTTCTGCTTA+AGG 0.329845 2.2:+1928988 None:intergenic
AATACAAGGTAGTTATAATA+GGG 0.431054 2.2:-1929219 MS.gene36318:CDS
TTTAGCAATGGAAAAGCATT+GGG 0.444822 2.2:-1929314 MS.gene36318:CDS
ATTCGGAAAAGAGGATGAAA+AGG 0.459648 2.2:-1929430 MS.gene36318:CDS
TGAGAAAACCTATGAAGATT+CGG 0.461549 2.2:-1929447 MS.gene36318:CDS
TTTAGCAACGGAAAAGCATT+GGG 0.462037 2.2:-1929032 MS.gene36318:CDS
TGTGTTGGTGAAACATCAAA+TGG 0.466991 2.2:-1928408 MS.gene36318:CDS
AGTCAGAAAAGAGGGTGAAA+AGG 0.473192 2.2:-1928935 MS.gene36318:CDS
ACACATCAGTGCAATGTTTG+TGG 0.475496 2.2:-1929344 MS.gene36318:CDS
AGAAGAGGTAGAAAGTGTAT+TGG 0.483023 2.2:-1928483 MS.gene36318:CDS
CACATCAGTGCAATGTTTGT+GGG 0.483344 2.2:-1929343 MS.gene36318:CDS
AAGCAGCCAAAGAAAGGAAA+AGG 0.486744 2.2:-1928342 MS.gene36318:CDS
AGTCTGAAAAGAGGATAAAG+AGG 0.489348 2.2:-1929148 MS.gene36318:CDS
AGTGATAAGCAGCCAAAGAA+AGG 0.491245 2.2:-1928348 MS.gene36318:CDS
TTTGATAAAGATAGTAAGCA+TGG 0.491925 2.2:-1929191 MS.gene36318:CDS
ACTTCATCATGATTCACAAA+AGG 0.507116 2.2:-1928976 MS.gene36318:CDS
AACTACCTTGTATTGAGAGA+GGG 0.509993 2.2:+1929228 None:intergenic
CCTATGAAGATTCGGAAAAG+AGG 0.512041 2.2:-1929439 MS.gene36318:CDS
ACTTAATCATCGTTCACAAA+AGG 0.517591 2.2:-1929258 MS.gene36318:CDS
GCTTAAGGAAGTGAGATCTT+CGG 0.523012 2.2:+1929003 None:intergenic
CAAACCCCTCTCTCAATACA+AGG 0.526964 2.2:-1929233 MS.gene36318:CDS
TGGGAATGGCAAGAATGAGC+TGG 0.528852 2.2:-1928388 MS.gene36318:CDS
TCTTAAGAAAGTGAGATCTC+CGG 0.549197 2.2:+1929285 None:intergenic
CCCGTGAAGAGTCTGAAAAG+AGG 0.549764 2.2:-1929157 MS.gene36318:CDS
GAAAAGCATTGGGTGGTCAC+CGG 0.556634 2.2:-1929304 MS.gene36318:CDS
CTATGAAGAGTCAGAAAAGA+GGG 0.570873 2.2:-1928943 MS.gene36318:CDS
CCTATGAAGAGTCAGAAAAG+AGG 0.571208 2.2:-1928944 MS.gene36318:CDS
TGGCAGAAGAGAGATAGAAG+AGG 0.582371 2.2:-1928498 MS.gene36318:intron
AAGCGATGAAGATGATGCTA+AGG 0.582770 2.2:-1928895 MS.gene36318:CDS
GGGAATGGCAAGAATGAGCT+GGG 0.589572 2.2:-1928387 MS.gene36318:CDS
TGAAGATGATGCTAAGGATG+AGG 0.590398 2.2:-1928889 MS.gene36318:CDS
ACTACCTTGTATTGAGAGAG+GGG 0.593179 2.2:+1929229 None:intergenic
GTGTTGGTGAAACATCAAAT+GGG 0.595282 2.2:-1928407 MS.gene36318:CDS
TAACTACCTTGTATTGAGAG+AGG 0.601425 2.2:+1929227 None:intergenic
ATGGATAAAGATCATAAGCA+TGG 0.604549 2.2:-1929473 MS.gene36318:CDS
TAGTGATGAAGATGATGCTA+AGG 0.613974 2.2:-1929390 MS.gene36318:CDS
AGCAATGGAAAAGCATTGGG+TGG 0.615604 2.2:-1929311 MS.gene36318:CDS
AAGTGATGAAGATGATGCTA+AGG 0.616457 2.2:-1929108 MS.gene36318:CDS
AGCAACGGAAAAGCATTGGG+TGG 0.623901 2.2:-1929029 MS.gene36318:CDS
GGTGAAACATCAAATGGGAA+TGG 0.636070 2.2:-1928402 MS.gene36318:CDS
TGAAGATGATGCTAAGGATG+AGG 0.644459 2.2:-1929384 MS.gene36318:CDS
GAATGAGTCGTATGTTACAG+AGG 0.655246 2.2:-1928307 MS.gene36318:CDS
GTGTATTGGTAGTGTTGAGG+CGG 0.666307 2.2:-1928469 MS.gene36318:CDS
AAAAGTTCTTGTCATAACGA+AGG 0.694153 2.2:+1928430 None:intergenic
AAAGTGTATTGGTAGTGTTG+AGG 0.694754 2.2:-1928472 MS.gene36318:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACAAGGTAGTAATAATA+GGG - chr2.2:1929051-1929070 MS.gene36318:CDS 20.0%
!! AATACAAGGTAGTTATAATA+GGG - chr2.2:1928556-1928575 MS.gene36318:intron 20.0%
! ATCTTCTTTATGATATTCAG+TGG + chr2.2:1929227-1929246 None:intergenic 25.0%
! CAATACAAGGTAGTAATAAT+AGG - chr2.2:1929050-1929069 MS.gene36318:CDS 25.0%
! CAATACAAGGTAGTTATAAT+AGG - chr2.2:1928555-1928574 MS.gene36318:intron 25.0%
! TCTTCTTTATGATATTCAGT+GGG + chr2.2:1929226-1929245 None:intergenic 25.0%
! TTTGATAAAGATAGTAAGCA+TGG - chr2.2:1928584-1928603 MS.gene36318:intron 25.0%
!! AATAATCCTTTTCCTTTCTT+TGG + chr2.2:1929442-1929461 None:intergenic 25.0%
!! TGTGGAAAAACTTTTAGTAA+CGG - chr2.2:1928944-1928963 MS.gene36318:CDS 25.0%
AAAAGTTCTTGTCATAACGA+AGG + chr2.2:1929348-1929367 None:intergenic 30.0%
ACTCATTCATCATCAACAAA+AGG - chr2.2:1929012-1929031 MS.gene36318:CDS 30.0%
ACTTAATCATCGTTCACAAA+AGG - chr2.2:1928517-1928536 MS.gene36318:intron 30.0%
ACTTCATCATGATTCACAAA+AGG - chr2.2:1928799-1928818 MS.gene36318:intron 30.0%
ATGGATAAAGATCATAAGCA+TGG - chr2.2:1928302-1928321 MS.gene36318:CDS 30.0%
CATAAAGAAGATCAAGATGA+TGG - chr2.2:1929235-1929254 MS.gene36318:CDS 30.0%
GATGATGAAGAAGAAATTGA+TGG - chr2.2:1929091-1929110 MS.gene36318:CDS 30.0%
GTGATTTATCTTTGCCAAAA+TGG - chr2.2:1929257-1929276 MS.gene36318:CDS 30.0%
TACTACCTTGTATTGAGAAA+GGG + chr2.2:1929045-1929064 None:intergenic 30.0%
TGAGAAAACCTATGAAGATT+CGG - chr2.2:1928328-1928347 MS.gene36318:CDS 30.0%
TTACTACCTTGTATTGAGAA+AGG + chr2.2:1929046-1929065 None:intergenic 30.0%
! ACACATCAATGCAATTTTTG+TGG - chr2.2:1928713-1928732 MS.gene36318:intron 30.0%
! TATGACAAGAACTTTTGTGT+TGG - chr2.2:1929352-1929371 MS.gene36318:CDS 30.0%
! TGTGGAAAAACTTTTAGCAA+CGG - chr2.2:1928731-1928750 MS.gene36318:intron 30.0%
!! GTCCTTTAAAATCTCTATTC+CGG + chr2.2:1929195-1929214 None:intergenic 30.0%
!! TTTAGCAATGGAAAAGCATT+GGG - chr2.2:1928461-1928480 MS.gene36318:CDS 30.0%
!! TTTAGTAACGGAAAAGCATT+GGG - chr2.2:1928956-1928975 MS.gene36318:CDS 30.0%
!! TTTTAGCAATGGAAAAGCAT+TGG - chr2.2:1928460-1928479 MS.gene36318:CDS 30.0%
!! TTTTAGTAACGGAAAAGCAT+TGG - chr2.2:1928955-1928974 MS.gene36318:CDS 30.0%
AAAACCCCTTTCTCAATACA+AGG - chr2.2:1929037-1929056 MS.gene36318:CDS 35.0%
AACTACCTTGTATTGAGAGA+GGG + chr2.2:1928550-1928569 None:intergenic 35.0%
AAGTGATGAAGATGATGCTA+AGG - chr2.2:1928667-1928686 MS.gene36318:intron 35.0%
ACTACCTTGTATTGAGAAAG+GGG + chr2.2:1929044-1929063 None:intergenic 35.0%
AGTCTGAAAAGAGGATAAAG+AGG - chr2.2:1928627-1928646 MS.gene36318:intron 35.0%
ATTCGGAAAAGAGGATGAAA+AGG - chr2.2:1928345-1928364 MS.gene36318:CDS 35.0%
CATGATGAAGTTTCTGCTTA+AGG + chr2.2:1928790-1928809 None:intergenic 35.0%
CTATGAAGAGTCAGAAAAGA+GGG - chr2.2:1928832-1928851 MS.gene36318:intron 35.0%
TAACTACCTTGTATTGAGAG+AGG + chr2.2:1928551-1928570 None:intergenic 35.0%
TAGTGATGAAGATGATGCTA+AGG - chr2.2:1928385-1928404 MS.gene36318:CDS 35.0%
TCTTAAGAAAGTGAGATCTC+CGG + chr2.2:1928493-1928512 None:intergenic 35.0%
TCTTTATGATATTCAGTGGG+AGG + chr2.2:1929223-1929242 None:intergenic 35.0%
! AGAAGAGGTAGAAAGTGTAT+TGG - chr2.2:1929292-1929311 MS.gene36318:CDS 35.0%
! CACCGGAATAGAGATTTTAA+AGG - chr2.2:1929190-1929209 MS.gene36318:CDS 35.0%
! GTGTTGGTGAAACATCAAAT+GGG - chr2.2:1929368-1929387 MS.gene36318:CDS 35.0%
! TGTGGGAAAACTTTTAGCAA+TGG - chr2.2:1928449-1928468 MS.gene36318:CDS 35.0%
! TGTGTTGGTGAAACATCAAA+TGG - chr2.2:1929367-1929386 MS.gene36318:CDS 35.0%
! TTTTTGCAGAGAGAACAAGT+TGG + chr2.2:1929127-1929146 None:intergenic 35.0%
!! AAAGTGTATTGGTAGTGTTG+AGG - chr2.2:1929303-1929322 MS.gene36318:CDS 35.0%
!! TTTAGCAACGGAAAAGCATT+GGG - chr2.2:1928743-1928762 MS.gene36318:intron 35.0%
!! TTTTAGCAACGGAAAAGCAT+TGG - chr2.2:1928742-1928761 MS.gene36318:intron 35.0%
AAGCAGCCAAAGAAAGGAAA+AGG - chr2.2:1929433-1929452 MS.gene36318:CDS 40.0%
AAGCGATGAAGATGATGCTA+AGG - chr2.2:1928880-1928899 MS.gene36318:CDS 40.0%
ACACATCAGTGCAATGTTTG+TGG - chr2.2:1928431-1928450 MS.gene36318:CDS 40.0%
ACTACCTTGTATTGAGAGAG+GGG + chr2.2:1928549-1928568 None:intergenic 40.0%
AGTCAGAAAAGAGGGTGAAA+AGG - chr2.2:1928840-1928859 MS.gene36318:intron 40.0%
AGTGATAAGCAGCCAAAGAA+AGG - chr2.2:1929427-1929446 MS.gene36318:CDS 40.0%
ATGCTTTGTATGGTCACATG+AGG - chr2.2:1929164-1929183 MS.gene36318:CDS 40.0%
CACATCAGTGCAATGTTTGT+GGG - chr2.2:1928432-1928451 MS.gene36318:CDS 40.0%
CCAACCATGAATGCTTTGTA+TGG - chr2.2:1929154-1929173 MS.gene36318:CDS 40.0%
CCTATGAAGAGTCAGAAAAG+AGG - chr2.2:1928831-1928850 MS.gene36318:intron 40.0%
CCTATGAAGATTCGGAAAAG+AGG - chr2.2:1928336-1928355 MS.gene36318:CDS 40.0%
GAATGAGTCGTATGTTACAG+AGG - chr2.2:1929468-1929487 MS.gene36318:CDS 40.0%
GCTTAAGGAAGTGAGATCTT+CGG + chr2.2:1928775-1928794 None:intergenic 40.0%
GGTGAAACATCAAATGGGAA+TGG - chr2.2:1929373-1929392 MS.gene36318:CDS 40.0%
TGAAGATGATGCTAAGGATG+AGG - chr2.2:1928391-1928410 MS.gene36318:CDS 40.0%
! CCATACAAAGCATTCATGGT+TGG + chr2.2:1929157-1929176 None:intergenic 40.0%
! CCTCTTTTCCGAATCTTCAT+AGG + chr2.2:1928339-1928358 None:intergenic 40.0%
! CCTCTTTTCTGACTCTTCAT+AGG + chr2.2:1928834-1928853 None:intergenic 40.0%
! GTGACCATACAAAGCATTCA+TGG + chr2.2:1929161-1929180 None:intergenic 40.0%
! TCCTCTTTTCAGACTCTTCA+CGG + chr2.2:1928622-1928641 None:intergenic 40.0%
!! CTATCTCTCTTCTGCCATTT+TGG + chr2.2:1929274-1929293 None:intergenic 40.0%
CAAACCCCTCTCTCAATACA+AGG - chr2.2:1928542-1928561 MS.gene36318:intron 45.0%
TGGCAGAAGAGAGATAGAAG+AGG - chr2.2:1929277-1929296 MS.gene36318:CDS 45.0%
! CCTCTTTTCAGACTCTTCAC+GGG + chr2.2:1928621-1928640 None:intergenic 45.0%
!! AGCAATGGAAAAGCATTGGG+TGG - chr2.2:1928464-1928483 MS.gene36318:CDS 45.0%
!! AGTAACGGAAAAGCATTGGG+TGG - chr2.2:1928959-1928978 MS.gene36318:CDS 45.0%
!! GTGTATTGGTAGTGTTGAGG+CGG - chr2.2:1929306-1929325 MS.gene36318:CDS 45.0%
ATGGTCACATGAGGACTCAC+CGG - chr2.2:1929173-1929192 MS.gene36318:CDS 50.0%
CCCGTGAAGAGTCTGAAAAG+AGG - chr2.2:1928618-1928637 MS.gene36318:intron 50.0%
GGGAATGGCAAGAATGAGCT+GGG - chr2.2:1929388-1929407 MS.gene36318:CDS 50.0%
TGGGAATGGCAAGAATGAGC+TGG - chr2.2:1929387-1929406 MS.gene36318:CDS 50.0%
!! AGCAACGGAAAAGCATTGGG+TGG - chr2.2:1928746-1928765 MS.gene36318:intron 50.0%
!! GAAAAGCATTGGGTGGTCAC+CGG - chr2.2:1928471-1928490 MS.gene36318:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 1928302 1929495 1928302 ID=MS.gene36318
chr2.2 mRNA 1928302 1929495 1928302 ID=MS.gene36318.t1;Parent=MS.gene36318
chr2.2 exon 1928857 1929495 1928857 ID=MS.gene36318.t1.exon1;Parent=MS.gene36318.t1
chr2.2 CDS 1928857 1929495 1928857 ID=cds.MS.gene36318.t1;Parent=MS.gene36318.t1
chr2.2 exon 1928302 1928514 1928302 ID=MS.gene36318.t1.exon2;Parent=MS.gene36318.t1
chr2.2 CDS 1928302 1928514 1928302 ID=cds.MS.gene36318.t1;Parent=MS.gene36318.t1
Gene Sequence

>MS.gene36318

ATGGATAAAGATCATAAGCATGGTTATGAGAAAACCTATGAAGATTCGGAAAAGAGGATGAAAAGGTCTTCATGTTCACTATCTAGTGATGAAGATGATGCTAAGGATGAGGTTTCTGTTCAAGAATCTACACATCAGTGCAATGTTTGTGGGAAAACTTTTAGCAATGGAAAAGCATTGGGTGGTCACCGGAGATCTCACTTTCTTAAGAAGAAACTTAATCATCGTTCACAAAAGGTACAAACCCCTCTCTCAATACAAGGTAGTTATAATAGGGCTAGTTTTGATAAAGATAGTAAGCATGGTTTTGAGAACACCCGTGAAGAGTCTGAAAAGAGGATAAAGAGGTCTTTTAGTTCTCTATCAAGTGATGAAGATGATGCTAAGGATGAGCTTTCTATTCAAGAATCTACACATCAATGCAATTTTTGTGGAAAAACTTTTAGCAACGGAAAAGCATTGGGTGGTCACCGAAGATCTCACTTCCTTAAGCAGAAACTTCATCATGATTCACAAAAGGTTGATAATACCTATGAAGAGTCAGAAAAGAGGGTGAAAAGGTCAGCTTGTTCTCTATCAAGCGATGAAGATGATGCTAAGGATGAGGTTTCTGTTCAAGAATCTACACATCAGTGCAATGTTTGTGGAAAAACTTTTAGTAACGGAAAAGCATTGGGTGGTCACCGGAGATCTCACTTTCTTAAGAAGAAACTCATTCATCATCAACAAAAGGTGAAAACCCCTTTCTCAATACAAGGTAGTAATAATAGGGCTAGTTTTGATGATTATGATGATGAAGAAGAAATTGATGGCATAGAGAAACCAACTTGTTCTCTCTGCAAAAAGAAGTTTCCAACCATGAATGCTTTGTATGGTCACATGAGGACTCACCGGAATAGAGATTTTAAAGGACTTAATCCTCCCACTGAATATCATAAAGAAGATCAAGATGATGGTGATTTATCTTTGCCAAAATGGCAGAAGAGAGATAGAAGAGGTAGAAAGTGTATTGGTAGTGTTGAGGCGGCTGCAAATCTTTTGCACCTTCGTTATGACAAGAACTTTTGTGTTGGTGAAACATCAAATGGGAATGGCAAGAATGAGCTGGGCAGTGATAGAAACAGCAGTGATAAGCAGCCAAAGAAAGGAAAAGGATTATTTGATTTGAATGAGTCGTATGTTACAGAGGACTAA
Protein sequence

>MS.gene36318.t1

MDKDHKHGYEKTYEDSEKRMKRSSCSLSSDEDDAKDEVSVQESTHQCNVCGKTFSNGKALGGHRRSHFLKKKLNHRSQKVQTPLSIQGSYNRASFDKDSKHGFENTREESEKRIKRSFSSLSSDEDDAKDELSIQESTHQCNFCGKTFSNGKALGGHRRSHFLKQKLHHDSQKVDNTYEESEKRVKRSACSLSSDEDDAKDEVSVQESTHQCNKRDRRGRKCIGSVEAAANLLHLRYDKNFCVGETSNGNGKNELGSDRNSSDKQPKKGKGLFDLNESYVTED