AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041208.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041208.01.T01 MTR_7g106580 93.233 133 9 0 1 133 1 133 5.92e-91 259
MsG0780041208.01.T01 MTR_2g088720 78.030 132 29 0 1 132 1 132 2.83e-72 212
MsG0780041208.01.T01 MTR_7g106600 79.845 129 26 0 5 133 2 130 5.28e-72 211
MsG0780041208.01.T01 MTR_2g088720 78.030 132 29 0 1 132 12 143 6.29e-72 212
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041208.01.T01 AT3G11750 59.504 121 48 1 10 129 21 141 4.54e-48 151
MsG0780041208.01.T01 AT5G62980 58.730 126 51 1 5 129 4 129 4.55e-47 148
MsG0780041208.01.T01 AT5G62980 58.730 126 51 1 5 129 4 129 4.55e-47 148
MsG0780041208.01.T01 AT3G21730 48.333 120 61 1 11 129 40 159 1.05e-36 123
MsG0780041208.01.T01 AT3G21730 43.750 64 35 1 67 129 12 75 3.74e-12 58.2

Find 30 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGCCCCAGCGTCCTTTCTT+CGG 0.233129 7:-88235175 None:intergenic
AAATCTTCTCCATTTGAAAA+TGG 0.236097 7:+88235074 MsG0780041208.01.T01:exon
TGCCCCAGCGTCCTTTCTTC+GGG 0.305549 7:-88235174 None:intergenic
AAGCCTCACGTGCCGATTCT+TGG 0.342820 7:+88236337 MsG0780041208.01.T01:CDS
GTTATTACATCAAACAGAAT+TGG 0.348075 7:-88236455 None:intergenic
AGGACCACCTCAAAACCTTC+TGG 0.366373 7:+88236237 MsG0780041208.01.T01:CDS
GGTTATGATGCAGTGATATC+AGG 0.385628 7:+88235099 MsG0780041208.01.T01:CDS
TTGATTACACTCAAATATAT+CGG 0.405243 7:+88235271 MsG0780041208.01.T01:CDS
CTTCTCCATTTGAAAATGGA+AGG 0.481363 7:+88235078 MsG0780041208.01.T01:exon
TCACGTGCCGATTCTTGGTC+CGG 0.482408 7:+88236342 MsG0780041208.01.T01:CDS
CTTGGTCCGGTTGATTACTT+AGG 0.494051 7:+88236355 MsG0780041208.01.T01:CDS
TCAACGCCTAAGTAATCAAC+CGG 0.496183 7:-88236361 None:intergenic
TGTAGATGTTGATGCTTGGA+TGG 0.499928 7:+88235206 MsG0780041208.01.T01:CDS
AGACCCGAAGAAAGGACGCT+GGG 0.502239 7:+88235171 MsG0780041208.01.T01:CDS
TAATCAACCGGACCAAGAAT+CGG 0.512727 7:-88236349 None:intergenic
TGGATGGATCTCAAACCAGC+TGG 0.535484 7:+88235222 MsG0780041208.01.T01:CDS
TCTTTGTAGATGTTGATGCT+TGG 0.541928 7:+88235202 MsG0780041208.01.T01:CDS
CAGTATTGCTAAGGAAGTCA+TGG 0.543461 7:+88236213 MsG0780041208.01.T01:intron
TCTGCAGTTCGTGTGAAGGT+TGG 0.555965 7:+88236313 MsG0780041208.01.T01:CDS
ATGGAGCAAGACCCGAAGAA+AGG 0.559112 7:+88235163 MsG0780041208.01.T01:CDS
AAGACCCGAAGAAAGGACGC+TGG 0.574117 7:+88235170 MsG0780041208.01.T01:CDS
TCAATGATGCAGTATTGCTA+AGG 0.582391 7:+88236204 MsG0780041208.01.T01:intron
GATATCTGCAGTTCGTGTGA+AGG 0.582974 7:+88236309 MsG0780041208.01.T01:CDS
ACCTCAAAACCTTCTGGAGT+CGG 0.583862 7:+88236243 MsG0780041208.01.T01:CDS
TTTGGGCTACCGACTCCAGA+AGG 0.596493 7:-88236252 None:intergenic
AGGAGACAAACTGATTGTGA+AGG 0.599308 7:+88235119 MsG0780041208.01.T01:CDS
GGAGACAAACTGATTGTGAA+GGG 0.603703 7:+88235120 MsG0780041208.01.T01:CDS
GGACCAAGAATCGGCACGTG+AGG 0.625498 7:-88236340 None:intergenic
GACCCGAAGAAAGGACGCTG+GGG 0.642251 7:+88235172 MsG0780041208.01.T01:CDS
ATTGCTAAGGAAGTCATGGA+AGG 0.658794 7:+88236217 MsG0780041208.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATAATGATAATAATAAAG+TGG - Chr7:88235681-88235700 None:intergenic 10.0%
!! ATTAAAAAATCAACGATTAT+AGG + Chr7:88235352-88235371 MsG0780041208.01.T01:intron 15.0%
!! ATTATTTAAACAATTTCCTA+TGG - Chr7:88235749-88235768 None:intergenic 15.0%
!! TGAATGGATAAAAAATAATT+TGG + Chr7:88235596-88235615 MsG0780041208.01.T01:intron 15.0%
!!! ATCGTTGATTTTTTAATTTT+TGG - Chr7:88235349-88235368 None:intergenic 15.0%
!!! ATTCTTTAAACAATTTTCTT+AGG + Chr7:88235868-88235887 MsG0780041208.01.T01:intron 15.0%
!!! TCGTTGATTTTTTAATTTTT+GGG - Chr7:88235348-88235367 None:intergenic 15.0%
!! AAATTTGCACATGAAATAAT+TGG + Chr7:88235568-88235587 MsG0780041208.01.T01:intron 20.0%
!! TTGATTACACTCAAATATAT+CGG + Chr7:88235271-88235290 MsG0780041208.01.T01:CDS 20.0%
!!! CGTTGATTTTTTAATTTTTG+GGG - Chr7:88235347-88235366 None:intergenic 20.0%
!!! GATTTTATACAATTTTGTGT+CGG + Chr7:88235387-88235406 MsG0780041208.01.T01:intron 20.0%
!!! GTTGATTTTTTAATTTTTGG+GGG - Chr7:88235346-88235365 None:intergenic 20.0%
!!! TACAATTTTATGTCGATTTT+AGG + Chr7:88235508-88235527 MsG0780041208.01.T01:intron 20.0%
! AAAAATAAAACCCCTTTATG+CGG + Chr7:88235544-88235563 MsG0780041208.01.T01:intron 25.0%
! AAATCTTCTCCATTTGAAAA+TGG + Chr7:88235074-88235093 MsG0780041208.01.T01:exon 25.0%
! GTTATTACATCAAACAGAAT+TGG - Chr7:88236458-88236477 None:intergenic 25.0%
!! TTGATTTTCTATGGTTTTCA+TGG + Chr7:88235144-88235163 MsG0780041208.01.T01:CDS 25.0%
!!! AAGTGGTGAATTTAATTTGA+TGG - Chr7:88235664-88235683 None:intergenic 25.0%
!!! ATTTTTTAATTTTTGGGGGT+GGG - Chr7:88235342-88235361 None:intergenic 25.0%
!!! TTTATGTCGATTTTAGGTTT+TGG + Chr7:88235514-88235533 MsG0780041208.01.T01:intron 25.0%
GAAATAATTGGTCACTTGAA+TGG + Chr7:88235580-88235599 MsG0780041208.01.T01:intron 30.0%
! CATAACCTTCCATTTTCAAA+TGG - Chr7:88235086-88235105 None:intergenic 30.0%
! TTTCATTACAAAGTGTCCAT+AGG + Chr7:88235730-88235749 MsG0780041208.01.T01:intron 30.0%
!!! AAGTACCCATTGCAATTTTT+TGG - Chr7:88236273-88236292 None:intergenic 30.0%
!!! AGTACCCATTGCAATTTTTT+GGG - Chr7:88236272-88236291 None:intergenic 30.0%
!!! GATTTTTTAATTTTTGGGGG+TGG - Chr7:88235343-88235362 None:intergenic 30.0%
!!! GCATAAAGGGGTTTTATTTT+TGG - Chr7:88235545-88235564 None:intergenic 30.0%
!!! TACAATTTTGTGTCGGTTTT+AGG + Chr7:88235394-88235413 MsG0780041208.01.T01:intron 30.0%
!!! TGTGTTTGACTTGTATTTTC+AGG + Chr7:88235818-88235837 MsG0780041208.01.T01:intron 30.0%
CTTCTCCATTTGAAAATGGA+AGG + Chr7:88235078-88235097 MsG0780041208.01.T01:exon 35.0%
GTAGCCCAAAAAATTGCAAT+GGG + Chr7:88236265-88236284 MsG0780041208.01.T01:CDS 35.0%
GTGCAAATTTACCGCATAAA+GGG - Chr7:88235558-88235577 None:intergenic 35.0%
TACACCACTTTACAGGAATA+AGG - Chr7:88235431-88235450 None:intergenic 35.0%
TCAATGATGCAGTATTGCTA+AGG + Chr7:88236204-88236223 MsG0780041208.01.T01:intron 35.0%
TCTTTGTAGATGTTGATGCT+TGG + Chr7:88235202-88235221 MsG0780041208.01.T01:CDS 35.0%
TGATCCTTATTCCTGTAAAG+TGG + Chr7:88235424-88235443 MsG0780041208.01.T01:intron 35.0%
TGCAAATTTACCGCATAAAG+GGG - Chr7:88235557-88235576 None:intergenic 35.0%
TGTGAAACTGTGTCTAACAT+TGG + Chr7:88236046-88236065 MsG0780041208.01.T01:intron 35.0%
TGTGCAAATTTACCGCATAA+AGG - Chr7:88235559-88235578 None:intergenic 35.0%
TTTGCAGAGCTATAAACACT+TGG + Chr7:88236161-88236180 MsG0780041208.01.T01:intron 35.0%
! AAGTTATCAGATTTTCCAGC+TGG - Chr7:88235240-88235259 None:intergenic 35.0%
! CGGAGCTAGAAAATATTTTG+GGG - Chr7:88235627-88235646 None:intergenic 35.0%
! GCGGAGCTAGAAAATATTTT+GGG - Chr7:88235628-88235647 None:intergenic 35.0%
!! CTAGAAAATATTTTGGGGGT+GGG - Chr7:88235622-88235641 None:intergenic 35.0%
!! GGAGCTAGAAAATATTTTGG+GGG - Chr7:88235626-88235645 None:intergenic 35.0%
!! GTGAAGGGATTGATTTTCTA+TGG + Chr7:88235135-88235154 MsG0780041208.01.T01:CDS 35.0%
!!! TTTGTGTCGGTTTTAGGTTT+CGG + Chr7:88235400-88235419 MsG0780041208.01.T01:intron 35.0%
AATATATCGGTCAGTCACAG+TGG + Chr7:88235284-88235303 MsG0780041208.01.T01:intron 40.0%
AGGAGACAAACTGATTGTGA+AGG + Chr7:88235119-88235138 MsG0780041208.01.T01:CDS 40.0%
ATTCCTGTAAAGTGGTGTAG+TGG + Chr7:88235432-88235451 MsG0780041208.01.T01:intron 40.0%
ATTGCTAAGGAAGTCATGGA+AGG + Chr7:88236217-88236236 MsG0780041208.01.T01:CDS 40.0%
CAGTATTGCTAAGGAAGTCA+TGG + Chr7:88236213-88236232 MsG0780041208.01.T01:intron 40.0%
GGAGACAAACTGATTGTGAA+GGG + Chr7:88235120-88235139 MsG0780041208.01.T01:CDS 40.0%
GGTAGCCCAAAAAATTGCAA+TGG + Chr7:88236264-88236283 MsG0780041208.01.T01:CDS 40.0%
GGTTATGATGCAGTGATATC+AGG + Chr7:88235099-88235118 MsG0780041208.01.T01:CDS 40.0%
TAATCAACCGGACCAAGAAT+CGG - Chr7:88236352-88236371 None:intergenic 40.0%
TCAACGCCTAAGTAATCAAC+CGG - Chr7:88236364-88236383 None:intergenic 40.0%
TGTAGATGTTGATGCTTGGA+TGG + Chr7:88235206-88235225 MsG0780041208.01.T01:CDS 40.0%
! GGCGGAGCTAGAAAATATTT+TGG - Chr7:88235629-88235648 None:intergenic 40.0%
!! GCTAGAAAATATTTTGGGGG+TGG - Chr7:88235623-88235642 None:intergenic 40.0%
CTTGGTCCGGTTGATTACTT+AGG + Chr7:88236355-88236374 MsG0780041208.01.T01:CDS 45.0%
GATATCTGCAGTTCGTGTGA+AGG + Chr7:88236309-88236328 MsG0780041208.01.T01:CDS 45.0%
! TAGCTCTGCAAACACATGTC+TGG - Chr7:88236153-88236172 None:intergenic 45.0%
! TTTCACATCGAAAGTGTGCC+CGG - Chr7:88236005-88236024 None:intergenic 45.0%
!! ACCTCAAAACCTTCTGGAGT+CGG + Chr7:88236243-88236262 MsG0780041208.01.T01:CDS 45.0%
!! ATTTGATGGTGACTGACCAG+TGG - Chr7:88235650-88235669 None:intergenic 45.0%
!!! ATATTTTCTAGCTCCGCCAC+TGG + Chr7:88235631-88235650 MsG0780041208.01.T01:intron 45.0%
!! AATTTAAATAATTCAATTAT+AGG + Chr7:88235466-88235485 MsG0780041208.01.T01:intron 5.0%
!!! ATTGAATTATTTAAATTTTT+TGG - Chr7:88235463-88235482 None:intergenic 5.0%
!!! TTAATATTATTGATTTTTTA+AGG + Chr7:88235845-88235864 MsG0780041208.01.T01:intron 5.0%
!!! TTGAATTATTTAAATTTTTT+GGG - Chr7:88235462-88235481 None:intergenic 5.0%
AGGACCACCTCAAAACCTTC+TGG + Chr7:88236237-88236256 MsG0780041208.01.T01:CDS 50.0%
ATATCGGTCAGTCACAGTGG+CGG + Chr7:88235287-88235306 MsG0780041208.01.T01:intron 50.0%
ATGGAGCAAGACCCGAAGAA+AGG + Chr7:88235163-88235182 MsG0780041208.01.T01:CDS 50.0%
GAGCCACTACACCACTTTAC+AGG - Chr7:88235438-88235457 None:intergenic 50.0%
TCTGCAGTTCGTGTGAAGGT+TGG + Chr7:88236313-88236332 MsG0780041208.01.T01:CDS 50.0%
TGGATGGATCTCAAACCAGC+TGG + Chr7:88235222-88235241 MsG0780041208.01.T01:CDS 50.0%
! GCAAACACATGTCTGGCTTC+AGG - Chr7:88236146-88236165 None:intergenic 50.0%
!! ACCGACTCCAGAAGGTTTTG+AGG - Chr7:88236247-88236266 None:intergenic 50.0%
!!! GACTCCAGAAGGTTTTGAGG+TGG - Chr7:88236244-88236263 None:intergenic 50.0%
AAGACCCGAAGAAAGGACGC+TGG + Chr7:88235170-88235189 MsG0780041208.01.T01:CDS 55.0%
AGACCCGAAGAAAGGACGCT+GGG + Chr7:88235171-88235190 MsG0780041208.01.T01:CDS 55.0%
TGTCGTGTGCTACCTGACAC+CGG + Chr7:88235983-88236002 MsG0780041208.01.T01:intron 55.0%
! TGATGGTGACTGACCAGTGG+CGG - Chr7:88235647-88235666 None:intergenic 55.0%
!! AAGCCTCACGTGCCGATTCT+TGG + Chr7:88236337-88236356 MsG0780041208.01.T01:CDS 55.0%
!! TAATTTTTGGGGGTGGGCCG+TGG - Chr7:88235336-88235355 None:intergenic 55.0%
!! TCACGTGCCGATTCTTGGTC+CGG + Chr7:88236342-88236361 MsG0780041208.01.T01:CDS 55.0%
!! TTTGGGCTACCGACTCCAGA+AGG - Chr7:88236255-88236274 None:intergenic 55.0%
CTGCCCCAGCGTCCTTTCTT+CGG - Chr7:88235178-88235197 None:intergenic 60.0%
GACCCGAAGAAAGGACGCTG+GGG + Chr7:88235172-88235191 MsG0780041208.01.T01:CDS 60.0%
GGACCAAGAATCGGCACGTG+AGG - Chr7:88236343-88236362 None:intergenic 60.0%
GTCGTGTGCTACCTGACACC+GGG + Chr7:88235984-88236003 MsG0780041208.01.T01:intron 60.0%
TGCCCCAGCGTCCTTTCTTC+GGG - Chr7:88235177-88235196 None:intergenic 60.0%
! ACAGTGGCGGAGCCCTTCAT+GGG + Chr7:88235300-88235319 MsG0780041208.01.T01:intron 60.0%
! AGCCCTTCATGGGCTGAGGT+GGG + Chr7:88235310-88235329 MsG0780041208.01.T01:intron 60.0%
! TCGAAAGTGTGCCCGGTGTC+AGG - Chr7:88235998-88236017 None:intergenic 60.0%
GGCCCACCTCAGCCCATGAA+GGG - Chr7:88235315-88235334 None:intergenic 65.0%
TGGCCCACCTCAGCCCATGA+AGG - Chr7:88235316-88235335 None:intergenic 65.0%
! CACAGTGGCGGAGCCCTTCA+TGG + Chr7:88235299-88235318 MsG0780041208.01.T01:intron 65.0%
! GAGCCCTTCATGGGCTGAGG+TGG + Chr7:88235309-88235328 MsG0780041208.01.T01:intron 65.0%
! TCATGGGCTGAGGTGGGCCA+CGG + Chr7:88235316-88235335 MsG0780041208.01.T01:intron 65.0%
! GCGGAGCCCTTCATGGGCTG+AGG + Chr7:88235306-88235325 MsG0780041208.01.T01:intron 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 88235060 88236484 88235060 ID=MsG0780041208.01;Name=MsG0780041208.01
Chr7 mRNA 88235060 88236484 88235060 ID=MsG0780041208.01.T01;Parent=MsG0780041208.01;Name=MsG0780041208.01.T01;_AED=0.45;_eAED=0.45;_QI=33|1|1|1|1|1|2|67|133
Chr7 exon 88235060 88235292 88235060 ID=MsG0780041208.01.T01:exon:3324;Parent=MsG0780041208.01.T01
Chr7 exon 88236216 88236484 88236216 ID=MsG0780041208.01.T01:exon:3325;Parent=MsG0780041208.01.T01
Chr7 five_prime_UTR 88235060 88235092 88235060 ID=MsG0780041208.01.T01:five_prime_utr;Parent=MsG0780041208.01.T01
Chr7 CDS 88235093 88235292 88235093 ID=MsG0780041208.01.T01:cds;Parent=MsG0780041208.01.T01
Chr7 CDS 88236216 88236417 88236216 ID=MsG0780041208.01.T01:cds;Parent=MsG0780041208.01.T01
Chr7 three_prime_UTR 88236418 88236484 88236418 ID=MsG0780041208.01.T01:three_prime_utr;Parent=MsG0780041208.01.T01
Gene Sequence

>MsG0780041208.01.T01

ATGGAAGGTTATGATGCAGTGATATCAGGAGACAAACTGATTGTGAAGGGATTGATTTTCTATGGTTTTCATGGAGCAAGACCCGAAGAAAGGACGCTGGGGCAGAAGTTCTTTGTAGATGTTGATGCTTGGATGGATCTCAAACCAGCTGGAAAATCTGATAACTTGTCTCATACTTTTGATTACACTCAAATATATCGTATTGCTAAGGAAGTCATGGAAGGACCACCTCAAAACCTTCTGGAGTCGGTAGCCCAAAAAATTGCAATGGGTACTTTGACAATTTGCAAAGAGATATCTGCAGTTCGTGTGAAGGTTGGAAAGCCTCACGTGCCGATTCTTGGTCCGGTTGATTACTTAGGCGTTGAAATTCTAAGACGCAGAAGCGATTTGACAGACTAA
Protein sequence

>MsG0780041208.01.T01

MEGYDAVISGDKLIVKGLIFYGFHGARPEERTLGQKFFVDVDAWMDLKPAGKSDNLSHTFDYTQIYRIAKEVMEGPPQNLLESVAQKIAMGTLTICKEISAVRVKVGKPHVPILGPVDYLGVEILRRRSDLTD*