AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011067.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011067.01.T01 MTR_2g097890 75.701 107 20 2 47 151 3 105 5.90e-39 129
MsG0280011067.01.T01 MTR_2g097890 75.701 107 20 2 47 151 3 105 7.29e-39 128
MsG0280011067.01.T01 MTR_2g097890 71.739 92 20 2 47 136 3 90 2.88e-26 95.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011067.01.T01 AT5G52370 64.286 84 29 1 68 151 21 103 1.33e-30 108
MsG0280011067.01.T01 AT5G58990 65.278 72 20 1 80 151 43 109 8.31e-28 101

Find 33 sgRNAs with CRISPR-Local

Find 118 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATAATCATAGCTTATATT+TGG 0.219856 2:+79061827 MsG0280011067.01.T01:CDS
AACTTCCTTCCAATGAGTTT+TGG 0.309432 2:-79063433 None:intergenic
AACCTTGTAGAGATTGAGTT+TGG 0.370445 2:-79063469 None:intergenic
TTATGATGCAGGATTGGAAC+TGG 0.389829 2:+79061749 MsG0280011067.01.T01:CDS
AAATCAATGGCGAATGCATT+AGG 0.413021 2:+79063214 MsG0280011067.01.T01:CDS
CTTTGATTTCTTAGTAGCTT+CGG 0.416628 2:-79063340 None:intergenic
TGCAGGATTGGAACTGGGTC+AGG 0.452693 2:+79061755 MsG0280011067.01.T01:CDS
AGATGGAGAAGAAGTGGAAA+GGG 0.459353 2:-79063304 None:intergenic
CAGGACCATGGGAATTCCTT+AGG 0.460543 2:+79061774 MsG0280011067.01.T01:CDS
AGGAGCTAAGTGCGCTAGCC+TGG 0.461068 2:+79061794 MsG0280011067.01.T01:CDS
GATGAAAGTGAAAGTGAAAG+TGG 0.464963 2:-79063277 None:intergenic
TGGTAACCGATTCCCCAGTT+AGG 0.472104 2:-79063405 None:intergenic
TGGAACTGGGTCAGGACCAT+GGG 0.486703 2:+79061763 MsG0280011067.01.T01:CDS
ACCACATGGCCAAAACTCAT+TGG 0.495437 2:+79063424 MsG0280011067.01.T01:CDS
TCAATGAACTATTATGATGC+AGG 0.502008 2:+79061738 None:intergenic
GAACTATTATGATGCAGGAT+TGG 0.502558 2:+79061743 MsG0280011067.01.T01:CDS
GCTAGCGCACTTAGCTCCTA+AGG 0.510397 2:-79061790 None:intergenic
CACCAAACTCAATCTCTACA+AGG 0.521765 2:+79063467 MsG0280011067.01.T01:CDS
GATTATGTATTGATGTTGCC+AGG 0.524125 2:-79061812 None:intergenic
AGAAAGAAGGTCGAAATCAA+TGG 0.528228 2:+79063201 MsG0280011067.01.T01:CDS
TCGGAAGCGGCATCAGAAGA+TGG 0.536957 2:-79063321 None:intergenic
TTGGAACTGGGTCAGGACCA+TGG 0.539529 2:+79061762 MsG0280011067.01.T01:CDS
AAGATGGAGAAGAAGTGGAA+AGG 0.544670 2:-79063305 None:intergenic
TGGAAAACATGGAAAAGCAT+GGG 0.563870 2:+79063577 MsG0280011067.01.T01:CDS
TTTCTTAGTAGCTTCGGAAG+CGG 0.572868 2:-79063334 None:intergenic
CATGGCCAAAACTCATTGGA+AGG 0.579589 2:+79063428 MsG0280011067.01.T01:CDS
AACCGAGAAAGAAAGAAAGA+AGG 0.587990 2:+79063188 MsG0280011067.01.T01:intron
ATGGAAAACATGGAAAAGCA+TGG 0.589492 2:+79063576 MsG0280011067.01.T01:CDS
ATCAGAAGATGGAGAAGAAG+TGG 0.602316 2:-79063310 None:intergenic
CTGGGGAATCGGTTACCACA+TGG 0.607209 2:+79063410 MsG0280011067.01.T01:CDS
TATGATGCAGGATTGGAACT+GGG 0.631342 2:+79061750 MsG0280011067.01.T01:CDS
TAGCTCCTAAGGAATTCCCA+TGG 0.675106 2:-79061779 None:intergenic
GGAAAACATGGAAAAGCATG+GGG 0.695615 2:+79063578 MsG0280011067.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATGAAAAAAATAAAATAT+CGG + Chr2:79063093-79063112 MsG0280011067.01.T01:intron 10.0%
!!! AAAACAAAATTGACTAATTT+TGG + Chr2:79062833-79062852 MsG0280011067.01.T01:intron 15.0%
!!! AAATTTCTCCTTATTTTTTT+AGG + Chr2:79061886-79061905 MsG0280011067.01.T01:intron 15.0%
!!! GAAAAGTATTGAAATTATAT+TGG - Chr2:79062714-79062733 None:intergenic 15.0%
!!! TTTATATTTTTTTCTTTTGC+AGG + Chr2:79063553-79063572 MsG0280011067.01.T01:intron 15.0%
!! AAAGTTAACTCATAAGATAA+AGG + Chr2:79062445-79062464 MsG0280011067.01.T01:intron 20.0%
!! AAATTACATAAACAACAACT+GGG + Chr2:79062162-79062181 MsG0280011067.01.T01:intron 20.0%
!! ACATAATCATAGCTTATATT+TGG + Chr2:79061827-79061846 MsG0280011067.01.T01:CDS 20.0%
!! AGAAATCATTTGAAAAGAAT+AGG + Chr2:79061914-79061933 MsG0280011067.01.T01:intron 20.0%
!! TAGAATAAGGTTAAACAATT+TGG - Chr2:79062324-79062343 None:intergenic 20.0%
!! TGTTTAACCTTATTCTATAA+CGG + Chr2:79062327-79062346 MsG0280011067.01.T01:intron 20.0%
!!! ACAAAACTTTTGGATATTAA+CGG + Chr2:79062225-79062244 MsG0280011067.01.T01:intron 20.0%
!!! GTTTATGTAATTTGTCTTTT+GGG - Chr2:79062155-79062174 None:intergenic 20.0%
!!! TGAAAACAATTTTACATGTA+CGG + Chr2:79062093-79062112 MsG0280011067.01.T01:intron 20.0%
!!! TGTTTATGTAATTTGTCTTT+TGG - Chr2:79062156-79062175 None:intergenic 20.0%
! ACTCATAATGACATGAAATA+TGG + Chr2:79062039-79062058 MsG0280011067.01.T01:intron 25.0%
! ATGAGTATTATAGATACACT+TGG - Chr2:79062025-79062044 None:intergenic 25.0%
! ATTATTCATACATCATGACT+TGG + Chr2:79063132-79063151 MsG0280011067.01.T01:intron 25.0%
! CAAATTACATAAACAACAAC+TGG + Chr2:79062161-79062180 MsG0280011067.01.T01:intron 25.0%
! CTCATAATGACATGAAATAT+GGG + Chr2:79062040-79062059 MsG0280011067.01.T01:intron 25.0%
! GATAATAGCATAGACATAAT+GGG + Chr2:79062791-79062810 MsG0280011067.01.T01:intron 25.0%
! GGTGAATATTAAAGTTGTAT+TGG - Chr2:79062524-79062543 None:intergenic 25.0%
! GTTTAACCTTATTCTATAAC+GGG + Chr2:79062328-79062347 MsG0280011067.01.T01:intron 25.0%
! TAAATTTATGTTCGTCATGA+GGG - Chr2:79062545-79062564 None:intergenic 25.0%
! TCCTACATTAAAATACTAGT+TGG + Chr2:79062624-79062643 MsG0280011067.01.T01:intron 25.0%
! TCTCAAGACCTAAAAAAATA+AGG - Chr2:79061897-79061916 None:intergenic 25.0%
! TGATAATAGCATAGACATAA+TGG + Chr2:79062790-79062809 MsG0280011067.01.T01:intron 25.0%
!! ACGGATTTCTTTTCTTTTTT+GGG + Chr2:79062112-79062131 MsG0280011067.01.T01:intron 25.0%
!! TACGGATTTCTTTTCTTTTT+TGG + Chr2:79062111-79062130 MsG0280011067.01.T01:intron 25.0%
!! TTATTCTCTTCACTCATTTT+GGG + Chr2:79063155-79063174 MsG0280011067.01.T01:intron 25.0%
!! TTTTCACGTCAATTAACATA+AGG + Chr2:79062729-79062748 MsG0280011067.01.T01:intron 25.0%
!!! AAACCTATGGATTTTTTGAA+AGG - Chr2:79062933-79062952 None:intergenic 25.0%
!!! AAATACTAGTTGGTAAAACT+AGG + Chr2:79062634-79062653 MsG0280011067.01.T01:intron 25.0%
!!! AACCTATGGATTTTTTGAAA+GGG - Chr2:79062932-79062951 None:intergenic 25.0%
!!! ACCAACTAGTATTTTAATGT+AGG - Chr2:79062628-79062647 None:intergenic 25.0%
!!! TATTTTTTTCTTTTGCAGGA+TGG + Chr2:79063557-79063576 MsG0280011067.01.T01:intron 25.0%
!!! TCATTTTTACGTTTTTATCG+AGG + Chr2:79062991-79063010 MsG0280011067.01.T01:intron 25.0%
!!! TTACTCTTTTAAAGCATAAG+AGG + Chr2:79062256-79062275 MsG0280011067.01.T01:intron 25.0%
AGTATTATAGATACACTTGG+AGG - Chr2:79062022-79062041 None:intergenic 30.0%
ATGATTGTGATATCTTGTTG+GGG + Chr2:79061950-79061969 MsG0280011067.01.T01:intron 30.0%
ATTGTGGTTCACATTAGTAA+AGG + Chr2:79061860-79061879 MsG0280011067.01.T01:intron 30.0%
CATGAAATATGGGATCAAAA+AGG + Chr2:79062050-79062069 MsG0280011067.01.T01:intron 30.0%
CATGATTGTGATATCTTGTT+GGG + Chr2:79061949-79061968 MsG0280011067.01.T01:intron 30.0%
CATTTGAAAAGAATAGGCAT+TGG + Chr2:79061920-79061939 MsG0280011067.01.T01:intron 30.0%
CTAAATTTATGTTCGTCATG+AGG - Chr2:79062546-79062565 None:intergenic 30.0%
TTGTGGTTCACATTAGTAAA+GGG + Chr2:79061861-79061880 MsG0280011067.01.T01:intron 30.0%
! CTTTGATTTCTTAGTAGCTT+CGG - Chr2:79063343-79063362 None:intergenic 30.0%
! GTTATTCTCTTCACTCATTT+TGG + Chr2:79063154-79063173 MsG0280011067.01.T01:intron 30.0%
!!! ACTTTGGGATACAAAACTTT+TGG + Chr2:79062215-79062234 MsG0280011067.01.T01:intron 30.0%
!!! GTTTTGAAGAGTGTTGATTT+TGG - Chr2:79063242-79063261 None:intergenic 30.0%
AAATCAATGGCGAATGCATT+AGG + Chr2:79063214-79063233 MsG0280011067.01.T01:CDS 35.0%
AACCGAGAAAGAAAGAAAGA+AGG + Chr2:79063188-79063207 MsG0280011067.01.T01:intron 35.0%
AACCTTGTAGAGATTGAGTT+TGG - Chr2:79063472-79063491 None:intergenic 35.0%
AGAAAGAAGGTCGAAATCAA+TGG + Chr2:79063201-79063220 MsG0280011067.01.T01:CDS 35.0%
ATACTGTTACATGAGGAGTT+TGG + Chr2:79062410-79062429 MsG0280011067.01.T01:intron 35.0%
ATGGAAAACATGGAAAAGCA+TGG + Chr2:79063576-79063595 MsG0280011067.01.T01:CDS 35.0%
ATGGGACTTAAAAACTCATG+TGG + Chr2:79062809-79062828 MsG0280011067.01.T01:intron 35.0%
CAAAATCACTCTTCTTTGGT+TGG - Chr2:79062969-79062988 None:intergenic 35.0%
CACCCTTTCAAAAAATCCAT+AGG + Chr2:79062927-79062946 MsG0280011067.01.T01:intron 35.0%
GAACTATTATGATGCAGGAT+TGG + Chr2:79061743-79061762 MsG0280011067.01.T01:CDS 35.0%
GACCTTCTTTCTTTCTTTCT+CGG - Chr2:79063193-79063212 None:intergenic 35.0%
GACTCAAAATCACTCTTCTT+TGG - Chr2:79062973-79062992 None:intergenic 35.0%
GATGAAAGTGAAAGTGAAAG+TGG - Chr2:79063280-79063299 None:intergenic 35.0%
GCATGATTGTGATATCTTGT+TGG + Chr2:79061948-79061967 MsG0280011067.01.T01:intron 35.0%
GCGATAGAGAAGAGAAATTA+AGG - Chr2:79062289-79062308 None:intergenic 35.0%
TAGACACATGAGATGGAAAA+GGG + Chr2:79062358-79062377 MsG0280011067.01.T01:intron 35.0%
TGGAAGAGAAAGAAAACCTA+TGG - Chr2:79062946-79062965 None:intergenic 35.0%
TGGGACTTAAAAACTCATGT+GGG + Chr2:79062810-79062829 MsG0280011067.01.T01:intron 35.0%
! AACTTCCTTCCAATGAGTTT+TGG - Chr2:79063436-79063455 None:intergenic 35.0%
! AGCTCAGTTTTTACCTAACT+GGG + Chr2:79063392-79063411 MsG0280011067.01.T01:CDS 35.0%
! GATTATGTATTGATGTTGCC+AGG - Chr2:79061815-79061834 None:intergenic 35.0%
! GCTTGATTTTGTAACACATG+TGG - Chr2:79062577-79062596 None:intergenic 35.0%
! TAGCTCAGTTTTTACCTAAC+TGG + Chr2:79063391-79063410 MsG0280011067.01.T01:CDS 35.0%
! TGGAAAACATGGAAAAGCAT+GGG + Chr2:79063577-79063596 MsG0280011067.01.T01:CDS 35.0%
! TTTTTACCTAACTGGGGAAT+CGG + Chr2:79063399-79063418 MsG0280011067.01.T01:CDS 35.0%
!! CTATACATCTTCTAAAGCTG+AGG - Chr2:79061993-79062012 None:intergenic 35.0%
!! TGGGGTATTGCTCATAAAAA+TGG + Chr2:79063596-79063615 MsG0280011067.01.T01:CDS 35.0%
AAGATGGAGAAGAAGTGGAA+AGG - Chr2:79063308-79063327 None:intergenic 40.0%
AATCACTCTTCTTTGGTTGG+TGG - Chr2:79062966-79062985 None:intergenic 40.0%
ACGTAAGATAAGTGGTCAAC+CGG + Chr2:79062384-79062403 MsG0280011067.01.T01:intron 40.0%
AGATGGAGAAGAAGTGGAAA+GGG - Chr2:79063307-79063326 None:intergenic 40.0%
ATCAGAAGATGGAGAAGAAG+TGG - Chr2:79063313-79063332 None:intergenic 40.0%
ATTTGGCCACAGTTTGATTG+TGG + Chr2:79061844-79061863 MsG0280011067.01.T01:intron 40.0%
CACCAAACTCAATCTCTACA+AGG + Chr2:79063467-79063486 MsG0280011067.01.T01:CDS 40.0%
CCTCATGTAACAGTATCAAC+CGG - Chr2:79062406-79062425 None:intergenic 40.0%
CTCTTGCCCGTTATAGAATA+AGG - Chr2:79062337-79062356 None:intergenic 40.0%
CTTTCTTTCTTTCTCGGTTG+CGG - Chr2:79063187-79063206 None:intergenic 40.0%
GTAGACACATGAGATGGAAA+AGG + Chr2:79062357-79062376 MsG0280011067.01.T01:intron 40.0%
TATGATGCAGGATTGGAACT+GGG + Chr2:79061750-79061769 MsG0280011067.01.T01:CDS 40.0%
TCTTCTCTATCGCGCAATAT+TGG + Chr2:79062296-79062315 MsG0280011067.01.T01:intron 40.0%
TGTGAACCACAATCAAACTG+TGG - Chr2:79061853-79061872 None:intergenic 40.0%
TTATGATGCAGGATTGGAAC+TGG + Chr2:79061749-79061768 MsG0280011067.01.T01:CDS 40.0%
TTTCTTAGTAGCTTCGGAAG+CGG - Chr2:79063337-79063356 None:intergenic 40.0%
! AAGGGTACACGTAAGATAAG+TGG + Chr2:79062376-79062395 MsG0280011067.01.T01:intron 40.0%
! CTTTTGCAGGATGGAAAACA+TGG + Chr2:79063566-79063585 MsG0280011067.01.T01:intron 40.0%
! GCTCAGTTTTTACCTAACTG+GGG + Chr2:79063393-79063412 MsG0280011067.01.T01:CDS 40.0%
! GGAAAACATGGAAAAGCATG+GGG + Chr2:79063578-79063597 MsG0280011067.01.T01:CDS 40.0%
!! CTTATTCTATAACGGGCAAG+AGG + Chr2:79062335-79062354 MsG0280011067.01.T01:intron 40.0%
ACCACATGGCCAAAACTCAT+TGG + Chr2:79063424-79063443 MsG0280011067.01.T01:CDS 45.0%
CAAGAGGTAGACACATGAGA+TGG + Chr2:79062351-79062370 MsG0280011067.01.T01:intron 45.0%
CATGGCCAAAACTCATTGGA+AGG + Chr2:79063428-79063447 MsG0280011067.01.T01:CDS 45.0%
GGATACAAGCTCGTTTAGCA+TGG - Chr2:79062607-79062626 None:intergenic 45.0%
GTGATATCTTGTTGGGGCAT+CGG + Chr2:79061956-79061975 MsG0280011067.01.T01:intron 45.0%
TAGCTCCTAAGGAATTCCCA+TGG - Chr2:79061782-79061801 None:intergenic 45.0%
! CCGGTTGATACTGTTACATG+AGG + Chr2:79062403-79062422 MsG0280011067.01.T01:intron 45.0%
!! TCCAATGAGTTTTGGCCATG+TGG - Chr2:79063428-79063447 None:intergenic 45.0%
!! AAAGTTTATATAAAATAAAT+TGG - Chr2:79062200-79062219 None:intergenic 5.0%
!!! AATTTATTTTATATAAACTT+TGG + Chr2:79062199-79062218 MsG0280011067.01.T01:intron 5.0%
!!! ATTTATTTTATATAAACTTT+GGG + Chr2:79062200-79062219 MsG0280011067.01.T01:intron 5.0%
CAGGACCATGGGAATTCCTT+AGG + Chr2:79061774-79061793 MsG0280011067.01.T01:CDS 50.0%
! TGGTAACCGATTCCCCAGTT+AGG - Chr2:79063408-79063427 None:intergenic 50.0%
CTGGGGAATCGGTTACCACA+TGG + Chr2:79063410-79063429 MsG0280011067.01.T01:CDS 55.0%
GCTAGCGCACTTAGCTCCTA+AGG - Chr2:79061793-79061812 None:intergenic 55.0%
TCGGAAGCGGCATCAGAAGA+TGG - Chr2:79063324-79063343 None:intergenic 55.0%
TGCAGGATTGGAACTGGGTC+AGG + Chr2:79061755-79061774 MsG0280011067.01.T01:CDS 55.0%
TGGAACTGGGTCAGGACCAT+GGG + Chr2:79061763-79061782 MsG0280011067.01.T01:CDS 55.0%
TTGGAACTGGGTCAGGACCA+TGG + Chr2:79061762-79061781 MsG0280011067.01.T01:CDS 55.0%
AGGAGCTAAGTGCGCTAGCC+TGG + Chr2:79061794-79061813 MsG0280011067.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 79061741 79063622 79061741 ID=MsG0280011067.01;Name=MsG0280011067.01
Chr2 mRNA 79061741 79063622 79061741 ID=MsG0280011067.01.T01;Parent=MsG0280011067.01;Name=MsG0280011067.01.T01;_AED=0.48;_eAED=0.61;_QI=0|0.5|0|1|0.5|0.33|3|0|151
Chr2 exon 79061741 79061854 79061741 ID=MsG0280011067.01.T01:exon:9926;Parent=MsG0280011067.01.T01
Chr2 exon 79063195 79063488 79063195 ID=MsG0280011067.01.T01:exon:9927;Parent=MsG0280011067.01.T01
Chr2 exon 79063575 79063622 79063575 ID=MsG0280011067.01.T01:exon:9928;Parent=MsG0280011067.01.T01
Chr2 CDS 79061741 79061854 79061741 ID=MsG0280011067.01.T01:cds;Parent=MsG0280011067.01.T01
Chr2 CDS 79063195 79063488 79063195 ID=MsG0280011067.01.T01:cds;Parent=MsG0280011067.01.T01
Chr2 CDS 79063575 79063622 79063575 ID=MsG0280011067.01.T01:cds;Parent=MsG0280011067.01.T01
Gene Sequence

>MsG0280011067.01.T01

ATGAACTATTATGATGCAGGATTGGAACTGGGTCAGGACCATGGGAATTCCTTAGGAGCTAAGTGCGCTAGCCTGGCAACATCAATACATAATCATAGCTTATATTTGGCCACAAAAGAAAGAAAGAAGGTCGAAATCAATGGCGAATGCATTAGGCACCAAAATCAACACTCTTCAAAACTCTTCTATTCTCAATCCACTTTCACTTTCACTTTCATCAGAACCCTTTCCACTTCTTCTCCATCTTCTGATGCCGCTTCCGAAGCTACTAAGAAATCAAAGCGAAGAAAGAAGAAAAACTTTTTCGAAGTAGCTCAGTTTTTACCTAACTGGGGAATCGGTTACCACATGGCCAAAACTCATTGGAAGGAAGTTTCTTACGAAATCACCAAACTCAATCTCTACAAGGATGGAAAACATGGAAAAGCATGGGGTATTGCTCATAAAAATGGTTAG

Protein sequence

>MsG0280011067.01.T01

MNYYDAGLELGQDHGNSLGAKCASLATSIHNHSLYLATKERKKVEINGECIRHQNQHSSKLFYSQSTFTFTFIRTLSTSSPSSDAASEATKKSKRRKKKNFFEVAQFLPNWGIGYHMAKTHWKEVSYEITKLNLYKDGKHGKAWGIAHKNG*