AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039836.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039836.01.T01 MTR_7g080220 96.429 224 8 0 9 232 52 275 1.43e-160 447
MsG0780039836.01.T01 MTR_7g080220 96.465 198 7 0 35 232 1 198 3.38e-142 397
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039836.01.T01 AT1G65230 65.625 224 68 3 9 232 39 253 1.56e-104 304

Find 48 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATGACTTGTCCACTAATT+TGG 0.200921 7:-69589206 None:intergenic
TCATTCAGCATGAAGAATTA+TGG 0.241883 7:+69589223 MsG0780039836.01.T01:CDS
AATTTGGTTAAGCGTAAATT+TGG 0.268859 7:-69589190 None:intergenic
ATCAGAGTTCTCTTCTTTCT+TGG 0.276153 7:-69589370 None:intergenic
AAAATTAGCACTCAAATTCT+TGG 0.285342 7:-69589343 None:intergenic
GATATTTATCCAGATCCTTC+TGG 0.318352 7:+69589390 MsG0780039836.01.T01:CDS
TTCAGATGCTGCTGATAAAA+TGG 0.337879 7:+69588053 MsG0780039836.01.T01:CDS
TTTACGCTTAACCAAATTAG+TGG 0.347218 7:+69589195 MsG0780039836.01.T01:CDS
AAAAGTATAAGAGACCTCTA+TGG 0.372478 7:+69588344 MsG0780039836.01.T01:CDS
TACAGTTGATATATGTTAGT+TGG 0.372887 7:+69587958 None:intergenic
TCAGAGTTCTCTTCTTTCTT+GGG 0.383027 7:-69589369 None:intergenic
AGTATCAAGTGGACAGTTAG+AGG 0.384239 7:+69589111 MsG0780039836.01.T01:CDS
ATTGTTTGCAGGATCCTATC+AGG 0.388892 7:+69588305 MsG0780039836.01.T01:intron
ACACCAGCTAGAACAGATTT+AGG 0.403229 7:-69589138 None:intergenic
GGTTGAATCTGTGAAAGATT+TGG 0.405021 7:+69589311 MsG0780039836.01.T01:CDS
CATTCAGCATGAAGAATTAT+GGG 0.416776 7:+69589224 MsG0780039836.01.T01:CDS
TTCGGTCCTATCAGCATCAT+TGG 0.433294 7:-69587998 None:intergenic
TAATTTAAACTCACCACAGA+TGG 0.463620 7:-69588388 None:intergenic
TGCTGTTTCTGTCACTTACA+AGG 0.463924 7:+69588209 MsG0780039836.01.T01:CDS
GTTGGATCACCAGAAGGATC+TGG 0.473479 7:-69589399 None:intergenic
CGACCACTAAAACTCCTGAT+AGG 0.474517 7:-69588319 None:intergenic
ATCTTCACCTGCTAGTGCTC+AGG 0.479652 7:+69589254 MsG0780039836.01.T01:CDS
CTCGTGATATATTTGAGCTA+AGG 0.495749 7:+69588160 MsG0780039836.01.T01:CDS
CAGTTGCCAATGATGCTGAT+AGG 0.508689 7:+69587992 MsG0780039836.01.T01:CDS
ATAAGAGAACTCACCTTGGT+TGG 0.519117 7:-69589417 None:intergenic
ATCGCGTGTTCTGTTTGCTA+CGG 0.519764 7:+69589290 MsG0780039836.01.T01:CDS
GTTTGGTTAACAGACTGTAC+AGG 0.529382 7:+69589059 MsG0780039836.01.T01:intron
ATGGTTGATAGTATGAACTT+TGG 0.529569 7:+69588072 MsG0780039836.01.T01:CDS
TGTGGTATCAGATGATAGTT+CGG 0.542233 7:-69588016 None:intergenic
AGGAGTGGGAATCGAGCACT+TGG 0.543642 7:+69588180 MsG0780039836.01.T01:CDS
AAGCCTAAATCTGTTCTAGC+TGG 0.546046 7:+69589135 MsG0780039836.01.T01:CDS
TCTGTTCTAGCTGGTGTAGG+AGG 0.568924 7:+69589144 MsG0780039836.01.T01:CDS
ACGAGCAAGTTGTCTTGCAG+TGG 0.572718 7:-69588142 None:intergenic
AAATCTGTTCTAGCTGGTGT+AGG 0.576290 7:+69589141 MsG0780039836.01.T01:CDS
GTATCAAGTGGACAGTTAGA+GGG 0.582280 7:+69589112 MsG0780039836.01.T01:CDS
AAAGTATAAGAGACCTCTAT+GGG 0.587841 7:+69588345 MsG0780039836.01.T01:CDS
AATTTAAACTCACCACAGAT+GGG 0.588338 7:-69588387 None:intergenic
GATATATTTGAGCTAAGGAG+TGG 0.589959 7:+69588165 MsG0780039836.01.T01:CDS
TGAGTGCAATAGTAGTCCCT+CGG 0.596094 7:+69588113 MsG0780039836.01.T01:CDS
CTTGCAGTGGATTCAACCGA+GGG 0.597295 7:-69588129 None:intergenic
ATATATTTGAGCTAAGGAGT+GGG 0.636515 7:+69588166 MsG0780039836.01.T01:CDS
ACCTTGGTTGGATCACCAGA+AGG 0.644200 7:-69589405 None:intergenic
CTAGATAAGAGAACTCACCT+TGG 0.644858 7:-69589421 None:intergenic
TCTTGCAGTGGATTCAACCG+AGG 0.655059 7:-69588130 None:intergenic
GTAAGTGACAGAAACAGCAT+AGG 0.662129 7:-69588205 None:intergenic
TGCACTTGAAAACCCATCTG+TGG 0.671005 7:+69588375 MsG0780039836.01.T01:CDS
TCCTTCTGGTGATCCAACCA+AGG 0.672407 7:+69589404 MsG0780039836.01.T01:CDS
AGTGCAGTGATAGCCCATAG+AGG 0.679550 7:-69588358 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAATTAAATTTGACAAA+AGG + Chr7:69589008-69589027 MsG0780039836.01.T01:intron 10.0%
!!! TAAGTTTTTCCTTTTTAATT+TGG + Chr7:69588522-69588541 MsG0780039836.01.T01:intron 15.0%
!! AATTAAATTTGACAAAAGGA+AGG + Chr7:69589012-69589031 MsG0780039836.01.T01:intron 20.0%
!! AGGTATTTATTTGTCTTTAA+TGG + Chr7:69588229-69588248 MsG0780039836.01.T01:intron 20.0%
!! ATAAAAGATATAAAGTCCAA+AGG - Chr7:69588259-69588278 None:intergenic 20.0%
!! CAAATTTCAATATATTTGAG+TGG + Chr7:69588917-69588936 MsG0780039836.01.T01:intron 20.0%
!! TACAAAATGTTGTCAAATAA+CGG + Chr7:69588658-69588677 MsG0780039836.01.T01:intron 20.0%
!!! GTTATGAAATTTGTTTTGTT+TGG + Chr7:69589042-69589061 MsG0780039836.01.T01:intron 20.0%
!!! TTTTTCCTTTTTAATTTGGT+GGG + Chr7:69588526-69588545 MsG0780039836.01.T01:intron 20.0%
! AAAATTAGCACTCAAATTCT+TGG - Chr7:69589346-69589365 None:intergenic 25.0%
! AATTTGGTTAAGCGTAAATT+TGG - Chr7:69589193-69589212 None:intergenic 25.0%
! GAAAGTGAAATCTAATAGAA+TGG - Chr7:69588976-69588995 None:intergenic 25.0%
! TAGAATGGTGAAATAAAACA+TGG - Chr7:69588961-69588980 None:intergenic 25.0%
!!! GATGTTTTTTTATTGTTTGC+AGG + Chr7:69588294-69588313 MsG0780039836.01.T01:intron 25.0%
!!! GTTTTTCCTTTTTAATTTGG+TGG + Chr7:69588525-69588544 MsG0780039836.01.T01:intron 25.0%
!!! TGAATATGATTTTTCAGTTG+TGG - Chr7:69588037-69588056 None:intergenic 25.0%
AAAGACATGAAATTGATCAG+TGG - Chr7:69588793-69588812 None:intergenic 30.0%
AAAGTATAAGAGACCTCTAT+GGG + Chr7:69588345-69588364 MsG0780039836.01.T01:CDS 30.0%
AAATTTGACAAAAGGAAGGT+AGG + Chr7:69589016-69589035 MsG0780039836.01.T01:intron 30.0%
AATCGATGGAATATCTAAGA+AGG - Chr7:69588833-69588852 None:intergenic 30.0%
AATTTAAACTCACCACAGAT+GGG - Chr7:69588390-69588409 None:intergenic 30.0%
ATATATTTGAGCTAAGGAGT+GGG + Chr7:69588166-69588185 MsG0780039836.01.T01:CDS 30.0%
ATGTCTTCAATCACAAATAG+CGG - Chr7:69588729-69588748 None:intergenic 30.0%
CATTCAGCATGAAGAATTAT+GGG + Chr7:69589224-69589243 MsG0780039836.01.T01:CDS 30.0%
TAATTTAAACTCACCACAGA+TGG - Chr7:69588391-69588410 None:intergenic 30.0%
TATAACATACTGCAAAACAC+TGG - Chr7:69588635-69588654 None:intergenic 30.0%
TCATTCAGCATGAAGAATTA+TGG + Chr7:69589223-69589242 MsG0780039836.01.T01:CDS 30.0%
TCTTAAACAGTTACCTCATA+TGG - Chr7:69588869-69588888 None:intergenic 30.0%
TTATGTAGTTTCTTCTCCTA+AGG + Chr7:69588408-69588427 MsG0780039836.01.T01:intron 30.0%
TTTACGCTTAACCAAATTAG+TGG + Chr7:69589195-69589214 MsG0780039836.01.T01:CDS 30.0%
! AAAAGTATAAGAGACCTCTA+TGG + Chr7:69588344-69588363 MsG0780039836.01.T01:CDS 30.0%
! AACTAGTCTATGAAGCAATA+AGG + Chr7:69588435-69588454 MsG0780039836.01.T01:intron 30.0%
! CCTCATATGGAAGTTTTTAA+AGG - Chr7:69588856-69588875 None:intergenic 30.0%
! CCTTTAAAAACTTCCATATG+AGG + Chr7:69588853-69588872 MsG0780039836.01.T01:intron 30.0%
! TGTCTTTAATGGTTTTCCTT+TGG + Chr7:69588240-69588259 MsG0780039836.01.T01:intron 30.0%
!! ATGGTTGATAGTATGAACTT+TGG + Chr7:69588072-69588091 MsG0780039836.01.T01:CDS 30.0%
!! CAAGTGTTTTAAGTATCAAG+TGG + Chr7:69589100-69589119 MsG0780039836.01.T01:CDS 30.0%
!! GAAGTTTTTAAAGGAATCGA+TGG - Chr7:69588847-69588866 None:intergenic 30.0%
!! TACTCAAGCATTGATCAAAA+GGG - Chr7:69588473-69588492 None:intergenic 30.0%
ATCAGAGTTCTCTTCTTTCT+TGG - Chr7:69589373-69589392 None:intergenic 35.0%
CTCGTGATATATTTGAGCTA+AGG + Chr7:69588160-69588179 MsG0780039836.01.T01:CDS 35.0%
GATATATTTGAGCTAAGGAG+TGG + Chr7:69588165-69588184 MsG0780039836.01.T01:CDS 35.0%
GATATTTATCCAGATCCTTC+TGG + Chr7:69589390-69589409 MsG0780039836.01.T01:CDS 35.0%
GGTTGAATCTGTGAAAGATT+TGG + Chr7:69589311-69589330 MsG0780039836.01.T01:CDS 35.0%
TCAGAGTTCTCTTCTTTCTT+GGG - Chr7:69589372-69589391 None:intergenic 35.0%
TCTAGCCCACCAAATTAAAA+AGG - Chr7:69588534-69588553 None:intergenic 35.0%
TGTGGTATCAGATGATAGTT+CGG - Chr7:69588019-69588038 None:intergenic 35.0%
TTCAGATGCTGCTGATAAAA+TGG + Chr7:69588053-69588072 MsG0780039836.01.T01:CDS 35.0%
! GAATGACTTGTCCACTAATT+TGG - Chr7:69589209-69589228 None:intergenic 35.0%
!! CTACTCAAGCATTGATCAAA+AGG - Chr7:69588474-69588493 None:intergenic 35.0%
AAGCCTAAATCTGTTCTAGC+TGG + Chr7:69589135-69589154 MsG0780039836.01.T01:CDS 40.0%
ACACCAGCTAGAACAGATTT+AGG - Chr7:69589141-69589160 None:intergenic 40.0%
AGTATCAAGTGGACAGTTAG+AGG + Chr7:69589111-69589130 MsG0780039836.01.T01:CDS 40.0%
ATAAGAGAACTCACCTTGGT+TGG - Chr7:69589420-69589439 None:intergenic 40.0%
ATCTCAGTGATGTCAGATAG+CGG + Chr7:69588562-69588581 MsG0780039836.01.T01:intron 40.0%
ATTGTTTGCAGGATCCTATC+AGG + Chr7:69588305-69588324 MsG0780039836.01.T01:intron 40.0%
CTAGATAAGAGAACTCACCT+TGG - Chr7:69589424-69589443 None:intergenic 40.0%
GCTATAGCGTTGTAGTATAG+TGG + Chr7:69588586-69588605 MsG0780039836.01.T01:intron 40.0%
GTAAGTGACAGAAACAGCAT+AGG - Chr7:69588208-69588227 None:intergenic 40.0%
GTATCAAGTGGACAGTTAGA+GGG + Chr7:69589112-69589131 MsG0780039836.01.T01:CDS 40.0%
GTTTGGTTAACAGACTGTAC+AGG + Chr7:69589059-69589078 MsG0780039836.01.T01:intron 40.0%
TTGTCAAATAACGGCTAGAG+CGG + Chr7:69588667-69588686 MsG0780039836.01.T01:intron 40.0%
! AAATCTGTTCTAGCTGGTGT+AGG + Chr7:69589141-69589160 MsG0780039836.01.T01:CDS 40.0%
! CATAGACTAGTTGCTTCCTT+AGG - Chr7:69588427-69588446 None:intergenic 40.0%
!! GATCCTATCAGGAGTTTTAG+TGG + Chr7:69588316-69588335 MsG0780039836.01.T01:CDS 40.0%
!! TGCTGTTTCTGTCACTTACA+AGG + Chr7:69588209-69588228 MsG0780039836.01.T01:CDS 40.0%
AAAAATGCCTGAGCACTAGC+AGG - Chr7:69589264-69589283 None:intergenic 45.0%
CAGTTGCCAATGATGCTGAT+AGG + Chr7:69587992-69588011 MsG0780039836.01.T01:CDS 45.0%
CGACCACTAAAACTCCTGAT+AGG - Chr7:69588322-69588341 None:intergenic 45.0%
TGAGTGCAATAGTAGTCCCT+CGG + Chr7:69588113-69588132 MsG0780039836.01.T01:CDS 45.0%
TGCACTTGAAAACCCATCTG+TGG + Chr7:69588375-69588394 MsG0780039836.01.T01:CDS 45.0%
TTCGGTCCTATCAGCATCAT+TGG - Chr7:69588001-69588020 None:intergenic 45.0%
! ATCGCGTGTTCTGTTTGCTA+CGG + Chr7:69589290-69589309 MsG0780039836.01.T01:CDS 45.0%
! CACAAATAGCGGAAGATAGC+TGG - Chr7:69588718-69588737 None:intergenic 45.0%
! CTAGTGCTCAGGCATTTTTC+TGG + Chr7:69589265-69589284 MsG0780039836.01.T01:CDS 45.0%
ACCTTGGTTGGATCACCAGA+AGG - Chr7:69589408-69589427 None:intergenic 50.0%
ACGAGCAAGTTGTCTTGCAG+TGG - Chr7:69588145-69588164 None:intergenic 50.0%
AGTGCAGTGATAGCCCATAG+AGG - Chr7:69588361-69588380 None:intergenic 50.0%
ATCTTCACCTGCTAGTGCTC+AGG + Chr7:69589254-69589273 MsG0780039836.01.T01:CDS 50.0%
GTTGGATCACCAGAAGGATC+TGG - Chr7:69589402-69589421 None:intergenic 50.0%
TCCTTCTGGTGATCCAACCA+AGG + Chr7:69589404-69589423 MsG0780039836.01.T01:CDS 50.0%
! CTTGCAGTGGATTCAACCGA+GGG - Chr7:69588132-69588151 None:intergenic 50.0%
! TCTGTTCTAGCTGGTGTAGG+AGG + Chr7:69589144-69589163 MsG0780039836.01.T01:CDS 50.0%
! TCTTGCAGTGGATTCAACCG+AGG - Chr7:69588133-69588152 None:intergenic 50.0%
AGGAGTGGGAATCGAGCACT+TGG + Chr7:69588180-69588199 MsG0780039836.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 69587970 69589443 69587970 ID=MsG0780039836.01;Name=MsG0780039836.01
Chr7 mRNA 69587970 69589443 69587970 ID=MsG0780039836.01.T01;Parent=MsG0780039836.01;Name=MsG0780039836.01.T01;_AED=0.40;_eAED=0.42;_QI=0|1|0.33|1|1|1|3|0|237
Chr7 exon 69587970 69588230 69587970 ID=MsG0780039836.01.T01:exon:12583;Parent=MsG0780039836.01.T01
Chr7 exon 69588316 69588396 69588316 ID=MsG0780039836.01.T01:exon:12584;Parent=MsG0780039836.01.T01
Chr7 exon 69589072 69589443 69589072 ID=MsG0780039836.01.T01:exon:12585;Parent=MsG0780039836.01.T01
Chr7 CDS 69587970 69588230 69587970 ID=MsG0780039836.01.T01:cds;Parent=MsG0780039836.01.T01
Chr7 CDS 69588316 69588396 69588316 ID=MsG0780039836.01.T01:cds;Parent=MsG0780039836.01.T01
Chr7 CDS 69589072 69589443 69589072 ID=MsG0780039836.01.T01:cds;Parent=MsG0780039836.01.T01
Gene Sequence

>MsG0780039836.01.T01

ATGTTAGTTGGTATGTGTTTTGCAGTTGCCAATGATGCTGATAGGACCGAACTATCATCTGATACCACAACTGAAAAATCATATTCAGATGCTGCTGATAAAATGGTTGATAGTATGAACTTTGGTGAGCTATGTAATGAGTTTGAGTGCAATAGTAGTCCCTCGGTTGAATCCACTGCAAGACAACTTGCTCGTGATATATTTGAGCTAAGGAGTGGGAATCGAGCACTTGGAACCTATGCTGTTTCTGTCACTTACAAGGATCCTATCAGGAGTTTTAGTGGTCGTGAAAAGTATAAGAGACCTCTATGGGCTATCACTGCACTTGAAAACCCATCTGTGACTGTACAGGAAATGACTATGCTGTCAACAAGTGTTTTAAGTATCAAGTGGACAGTTAGAGGGAAGCCTAAATCTGTTCTAGCTGGTGTAGGAGGAGATCTCATACTTAGAGTTACTTCCAAATTTACGCTTAACCAAATTAGTGGACAAGTCATTCAGCATGAAGAATTATGGGACTTATCATCTTCACCTGCTAGTGCTCAGGCATTTTTCTGGTCATCGCGTGTTCTGTTTGCTACGGTTGAATCTGTGAAAGATTTGGCTGATAGTGCCAAGAATTTGAGTGCTAATTTTTCACCCAAGAAAGAAGAGAACTCTGATATTTATCCAGATCCTTCTGGTGATCCAACCAAGGTGAGTTCTCTTATCTAG

Protein sequence

>MsG0780039836.01.T01

MLVGMCFAVANDADRTELSSDTTTEKSYSDAADKMVDSMNFGELCNEFECNSSPSVESTARQLARDIFELRSGNRALGTYAVSVTYKDPIRSFSGREKYKRPLWAITALENPSVTVQEMTMLSTSVLSIKWTVRGKPKSVLAGVGGDLILRVTSKFTLNQISGQVIQHEELWDLSSSPASAQAFFWSSRVLFATVESVKDLADSAKNLSANFSPKKEENSDIYPDPSGDPTKVSSLI*