AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75379


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75379.t1 MTR_4g011020 98.286 175 1 1 1 173 1 175 2.14e-125 350
MS.gene75379.t1 MTR_2g103490 76.506 166 38 1 1 165 1 166 1.14e-89 259
MS.gene75379.t1 MTR_2g103460 71.084 166 47 1 1 165 1 166 6.39e-83 242
MS.gene75379.t1 MTR_4g114080 67.105 152 49 1 5 155 1 152 6.43e-77 227
MS.gene75379.t1 MTR_1g115170 68.531 143 44 1 24 165 1 143 2.75e-66 199
MS.gene75379.t1 MTR_2g005880 62.500 136 51 0 8 143 2 137 1.83e-61 188
MS.gene75379.t1 MTR_5g021610 54.362 149 60 2 6 148 22 168 8.57e-56 175
MS.gene75379.t1 MTR_8g076160 54.286 140 60 1 8 143 12 151 9.08e-55 172
MS.gene75379.t1 MTR_0003s0630 47.701 174 83 4 2 169 29 200 8.74e-54 169
MS.gene75379.t1 MTR_4g125860 29.365 126 82 2 13 136 72 192 4.64e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75379.t1 AT1G80160 79.878 164 33 0 1 164 1 164 7.13e-97 277
MS.gene75379.t1 AT1G80160 79.878 164 33 0 1 164 42 205 1.26e-96 278
MS.gene75379.t1 AT1G15380 74.419 172 44 0 1 172 1 172 7.44e-96 275
MS.gene75379.t1 AT1G15380 74.419 172 44 0 1 172 1 172 7.44e-96 275
MS.gene75379.t1 AT1G80160 78.571 112 24 0 53 164 27 138 5.60e-60 183
MS.gene75379.t1 AT2G28420 54.478 134 59 2 11 142 18 151 1.28e-53 168

Find 35 sgRNAs with CRISPR-Local

Find 103 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGAACCAGGCCTTCTTAT+TGG 0.200598 4.2:+89348268 None:intergenic
TTCTTCCTTGGTAACGTCTC+TGG 0.223323 4.2:+89347843 None:intergenic
GACCTAATTTGCAGGCTATT+TGG 0.231443 4.2:-89347903 MS.gene75379:intron
GATTTCTACCAGAATGTTCT+TGG 0.277645 4.2:-89348298 MS.gene75379:CDS
GGATTTATTTCTTTCTTCCT+TGG 0.309354 4.2:+89347831 None:intergenic
AAGAACCAGGCCTTCTTATT+GGG 0.313845 4.2:+89348269 None:intergenic
AGGCTATTTGGCTATGGTAT+TGG 0.365518 4.2:-89347891 MS.gene75379:CDS
ATCTCAATCATGAAACCATC+TGG 0.372159 4.2:+89346853 None:intergenic
CTTGCTACCTCACCAACTAA+TGG 0.386113 4.2:+89346802 None:intergenic
AAAGATATGTGATTATCCTT+TGG 0.393062 4.2:+89347810 None:intergenic
GGAAGAAACCAAGAACATTC+TGG 0.404879 4.2:+89348290 None:intergenic
GGATAATCACATATCTTTCC+AGG 0.407468 4.2:-89347805 MS.gene75379:intron
CTTCCTGTGATTCCATTAGT+TGG 0.419159 4.2:-89346814 MS.gene75379:CDS
TGATGTGTAGTGTGAGAGCA+TGG 0.433903 4.2:-89346974 MS.gene75379:intron
TCTTCCTTGGTAACGTCTCT+GGG 0.440829 4.2:+89347844 None:intergenic
TTGGTTTCTTCCCAATAAGA+AGG 0.469291 4.2:-89348279 MS.gene75379:CDS
ATTTGCAGGCTATTTGGCTA+TGG 0.473328 4.2:-89347897 MS.gene75379:intron
TTCTTCCCAATAAGAAGGCC+TGG 0.475428 4.2:-89348274 MS.gene75379:CDS
TCATGAAACCATCTGGGTCA+TGG 0.503506 4.2:+89346860 None:intergenic
TGAGAAAATGAAGGAAAGTG+TGG 0.520447 4.2:-89348389 None:intergenic
GATGTGTAGTGTGAGAGCAT+GGG 0.523117 4.2:-89346973 MS.gene75379:intron
AGAGGAAGGTGGGATTGAAG+TGG 0.523433 4.2:-89346896 MS.gene75379:CDS
TCACCAACTAATGGAATCAC+AGG 0.547180 4.2:+89346811 None:intergenic
TGTGATTCCATTAGTTGGTG+AGG 0.549148 4.2:-89346809 MS.gene75379:CDS
GAGCAAGAGTAGAGGAAGGT+GGG 0.575892 4.2:-89346906 MS.gene75379:CDS
GAGAAAATGAAGGAAAGTGT+GGG 0.578884 4.2:-89348388 None:intergenic
CGAGCAAGAGTAGAGGAAGG+TGG 0.581051 4.2:-89346907 MS.gene75379:CDS
GAAGAAAGAAATAAATCCAA+AGG 0.593095 4.2:-89347826 MS.gene75379:CDS
CCATCAAAATCAAAAGAACC+AGG 0.595725 4.2:+89348256 None:intergenic
ATGTGTAGTGTGAGAGCATG+GGG 0.604175 4.2:-89346972 MS.gene75379:intron
TCTCAATCATGAAACCATCT+GGG 0.612866 4.2:+89346854 None:intergenic
TTATGTTCGAGCAAGAGTAG+AGG 0.637893 4.2:-89346914 MS.gene75379:CDS
AGAACCCAGAGACGTTACCA+AGG 0.641794 4.2:-89347848 MS.gene75379:CDS
GTTCGAGCAAGAGTAGAGGA+AGG 0.649580 4.2:-89346910 MS.gene75379:CDS
TGTGTAGTGTGAGAGCATGG+GGG 0.814788 4.2:-89346971 MS.gene75379:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACAAAAATTATTAAATTTTG+AGG + chr4.2:89347125-89347144 None:intergenic 10.0%
!!! CAAAAATTATTAAATTTTGA+GGG + chr4.2:89347124-89347143 None:intergenic 10.0%
!!! TCTATATTTAGTTTTAAATT+TGG + chr4.2:89347488-89347507 None:intergenic 10.0%
!!! TTTCAATTTTTTTGTTAAAA+CGG - chr4.2:89346955-89346974 MS.gene75379:CDS 10.0%
!! ACACAAAATTTCATATTAAA+TGG + chr4.2:89348097-89348116 None:intergenic 15.0%
!! TTGAAAAATATTAGTTAAAG+TGG + chr4.2:89347058-89347077 None:intergenic 15.0%
!! AATTGAAAACAACTTAAAAG+GGG - chr4.2:89347076-89347095 MS.gene75379:intron 20.0%
!! ATCCAACTTTCTTAATTTAA+TGG - chr4.2:89347874-89347893 MS.gene75379:CDS 20.0%
!! ATTGATTACGTTTCAAAATT+TGG - chr4.2:89347352-89347371 MS.gene75379:intron 20.0%
!! CAATTGAAAACAACTTAAAA+GGG - chr4.2:89347075-89347094 MS.gene75379:intron 20.0%
!! TACCATTAAATTAAGAAAGT+TGG + chr4.2:89347879-89347898 None:intergenic 20.0%
!! TCAATTGAAAACAACTTAAA+AGG - chr4.2:89347074-89347093 MS.gene75379:intron 20.0%
!!! ATTTTGAAACGTAATCAATA+AGG + chr4.2:89347351-89347370 None:intergenic 20.0%
!!! GAATTTAATAAACTTTTGCT+TGG - chr4.2:89347149-89347168 MS.gene75379:intron 20.0%
! AAAGATATGTGATTATCCTT+TGG + chr4.2:89347301-89347320 None:intergenic 25.0%
! ACAATGTATAATATATGCAG+AGG - chr4.2:89347765-89347784 MS.gene75379:intron 25.0%
! GAAGAAAGAAATAAATCCAA+AGG - chr4.2:89347282-89347301 MS.gene75379:intron 25.0%
! GTGCAAAAAATTACATGATT+CGG + chr4.2:89347650-89347669 None:intergenic 25.0%
! GTTTCATCAGAAATTAAACT+TGG - chr4.2:89348032-89348051 MS.gene75379:intron 25.0%
! TTTGTGTTTGAACTTTGAAT+TGG - chr4.2:89348110-89348129 MS.gene75379:intron 25.0%
!! AAGCTCACACATTTTAAATA+CGG + chr4.2:89347814-89347833 None:intergenic 25.0%
!! CGTTTATGTTATCCTTTTTA+AGG - chr4.2:89347560-89347579 MS.gene75379:intron 25.0%
!! CTCAACAATTTGTCATTTAT+CGG - chr4.2:89348061-89348080 MS.gene75379:intron 25.0%
!!! AGATATGATTCACTGATTTT+AGG + chr4.2:89346758-89346777 None:intergenic 25.0%
!!! TGAAAATTGATTTTTGCATG+TGG - chr4.2:89347181-89347200 MS.gene75379:intron 25.0%
CGATAAATGACAAATTGTTG+AGG + chr4.2:89348063-89348082 None:intergenic 30.0%
TGTATAATATATGCAGAGGT+CGG - chr4.2:89347769-89347788 MS.gene75379:intron 30.0%
TTTAAGGATCTTATCCTCTA+AGG - chr4.2:89347596-89347615 MS.gene75379:intron 30.0%
! AGCTCACACATTTTAAATAC+GGG + chr4.2:89347813-89347832 None:intergenic 30.0%
! GGATTTATTTCTTTCTTCCT+TGG + chr4.2:89347280-89347299 None:intergenic 30.0%
!! TCCTTTTTAAGGATATGCAA+TGG - chr4.2:89347571-89347590 MS.gene75379:intron 30.0%
!!! ATGTAATTTTTTGCACTGCA+CGG - chr4.2:89347654-89347673 MS.gene75379:intron 30.0%
!!! TTTTTCTATGCGTCACTTTT+AGG + chr4.2:89347464-89347483 None:intergenic 30.0%
!!! TTTTTTATCAAGGAGACTAG+TGG + chr4.2:89347840-89347859 None:intergenic 30.0%
ATCAGACTATACTTACCTCA+CGG + chr4.2:89348004-89348023 None:intergenic 35.0%
ATCTCAATCATGAAACCATC+TGG + chr4.2:89348258-89348277 None:intergenic 35.0%
CCATCAAAATCAAAAGAACC+AGG + chr4.2:89346855-89346874 None:intergenic 35.0%
GATTTCTACCAGAATGTTCT+TGG - chr4.2:89346810-89346829 MS.gene75379:CDS 35.0%
GCCATTGCATATCCTTAAAA+AGG + chr4.2:89347575-89347594 None:intergenic 35.0%
GCCATTGTTAGTATTATGCT+GGG - chr4.2:89346977-89346996 MS.gene75379:intron 35.0%
GGAGAAAAAGCTGAAAGAAA+TGG - chr4.2:89348164-89348183 MS.gene75379:intron 35.0%
GGATAATCACATATCTTTCC+AGG - chr4.2:89347303-89347322 MS.gene75379:intron 35.0%
GTATAATATATGCAGAGGTC+GGG - chr4.2:89347770-89347789 MS.gene75379:intron 35.0%
GTTTAGTGAAAAATCTGACC+TGG + chr4.2:89347324-89347343 None:intergenic 35.0%
TAAACGTGTCTATGATGACT+AGG + chr4.2:89347546-89347565 None:intergenic 35.0%
TAGTCTATGTGAGCTTAACT+CGG - chr4.2:89347733-89347752 MS.gene75379:intron 35.0%
TATAATATATGCAGAGGTCG+GGG - chr4.2:89347771-89347790 MS.gene75379:intron 35.0%
TCCCAGCATAATACTAACAA+TGG + chr4.2:89346981-89347000 None:intergenic 35.0%
TCTCAATCATGAAACCATCT+GGG + chr4.2:89348257-89348276 None:intergenic 35.0%
TGTTAACCATTCGATTCTCA+GGG - chr4.2:89347950-89347969 MS.gene75379:intron 35.0%
TTGGTTTCTTCCCAATAAGA+AGG - chr4.2:89346829-89346848 MS.gene75379:CDS 35.0%
TTGTTAACCATTCGATTCTC+AGG - chr4.2:89347949-89347968 MS.gene75379:intron 35.0%
! AGGATATGCAATGGCTTTTA+AGG - chr4.2:89347580-89347599 MS.gene75379:intron 35.0%
! CATTTTAAATACGGGATGTC+TGG + chr4.2:89347805-89347824 None:intergenic 35.0%
!!! CCTGGTTCTTTTGATTTTGA+TGG - chr4.2:89346852-89346871 MS.gene75379:CDS 35.0%
!!! CTTTTGATTTTGATGGAGCA+TGG - chr4.2:89346859-89346878 MS.gene75379:CDS 35.0%
!!! TCACTGATTTTAGGTGCAAA+GGG + chr4.2:89346749-89346768 None:intergenic 35.0%
!!! TTCACTGATTTTAGGTGCAA+AGG + chr4.2:89346750-89346769 None:intergenic 35.0%
AAAGAACCAGGCCTTCTTAT+TGG + chr4.2:89346843-89346862 None:intergenic 40.0%
AAGAACCAGGCCTTCTTATT+GGG + chr4.2:89346842-89346861 None:intergenic 40.0%
AGCCAAATAGCCTGCAAATT+AGG + chr4.2:89347210-89347229 None:intergenic 40.0%
AGGCTATTTGGCTATGGTAT+TGG - chr4.2:89347217-89347236 MS.gene75379:intron 40.0%
ATTTGCAGGCTATTTGGCTA+TGG - chr4.2:89347211-89347230 MS.gene75379:intron 40.0%
CTTCCTGTGATTCCATTAGT+TGG - chr4.2:89348294-89348313 MS.gene75379:CDS 40.0%
GCATCGTGCAATTGTAGTAA+AGG - chr4.2:89347901-89347920 MS.gene75379:intron 40.0%
GGAAGAAACCAAGAACATTC+TGG + chr4.2:89346821-89346840 None:intergenic 40.0%
GGCCATTGTTAGTATTATGC+TGG - chr4.2:89346976-89346995 MS.gene75379:intron 40.0%
TCACCAACTAATGGAATCAC+AGG + chr4.2:89348300-89348319 None:intergenic 40.0%
TTATGTTCGAGCAAGAGTAG+AGG - chr4.2:89348194-89348213 MS.gene75379:intron 40.0%
! GACCTAATTTGCAGGCTATT+TGG - chr4.2:89347205-89347224 MS.gene75379:intron 40.0%
! GCAATTTGAAGCAACCTTAG+AGG + chr4.2:89347613-89347632 None:intergenic 40.0%
! GGAAAAGAGCTCTGGTAATT+CGG - chr4.2:89347971-89347990 MS.gene75379:intron 40.0%
! TCTTTTCCCTGAGAATCGAA+TGG + chr4.2:89347959-89347978 None:intergenic 40.0%
! TGTGATTCCATTAGTTGGTG+AGG - chr4.2:89348299-89348318 MS.gene75379:CDS 40.0%
!! CTATTTTTCCATGACCCAGA+TGG - chr4.2:89348240-89348259 MS.gene75379:intron 40.0%
ATTCTCAGGGAAAAGAGCTC+TGG - chr4.2:89347963-89347982 MS.gene75379:intron 45.0%
CTATGTGAGCTTAACTCGGT+TGG - chr4.2:89347737-89347756 MS.gene75379:intron 45.0%
CTTGCTACCTCACCAACTAA+TGG + chr4.2:89348309-89348328 None:intergenic 45.0%
TCATGAAACCATCTGGGTCA+TGG + chr4.2:89348251-89348270 None:intergenic 45.0%
TGATGTGTAGTGTGAGAGCA+TGG - chr4.2:89348134-89348153 MS.gene75379:intron 45.0%
TTCTTCCCAATAAGAAGGCC+TGG - chr4.2:89346834-89346853 MS.gene75379:CDS 45.0%
! ATGTGTAGTGTGAGAGCATG+GGG - chr4.2:89348136-89348155 MS.gene75379:intron 45.0%
! CATGTGGTGACCTAATTTGC+AGG - chr4.2:89347197-89347216 MS.gene75379:intron 45.0%
! GATGTGTAGTGTGAGAGCAT+GGG - chr4.2:89348135-89348154 MS.gene75379:intron 45.0%
! TGAGCTTAACTCGGTTGGTA+GGG - chr4.2:89347742-89347761 MS.gene75379:intron 45.0%
!! TCTTCCTTGGTAACGTCTCT+GGG + chr4.2:89347267-89347286 None:intergenic 45.0%
!! TTCTTCCTTGGTAACGTCTC+TGG + chr4.2:89347268-89347287 None:intergenic 45.0%
!!! ATATATATTTTTTTTTATCA+AGG + chr4.2:89347850-89347869 None:intergenic 5.0%
!!! TTTAGTTTTAAATTTAAATT+TGG + chr4.2:89347516-89347535 None:intergenic 5.0%
AGAACCCAGAGACGTTACCA+AGG - chr4.2:89347260-89347279 MS.gene75379:intron 50.0%
AGAGGAAGGTGGGATTGAAG+TGG - chr4.2:89348212-89348231 MS.gene75379:intron 50.0%
GAAGTTCGAACATCGATCCC+AGG + chr4.2:89347011-89347030 None:intergenic 50.0%
GAGCAAGAGTAGAGGAAGGT+GGG - chr4.2:89348202-89348221 MS.gene75379:intron 50.0%
GTGAGCTTAACTCGGTTGGT+AGG - chr4.2:89347741-89347760 MS.gene75379:intron 50.0%
GTTCGAGCAAGAGTAGAGGA+AGG - chr4.2:89348198-89348217 MS.gene75379:intron 50.0%
TAATTCGGAGTTCGACCGTG+AGG - chr4.2:89347986-89348005 MS.gene75379:intron 50.0%
! TGTGTAGTGTGAGAGCATGG+GGG - chr4.2:89348137-89348156 MS.gene75379:intron 50.0%
CGAGCAAGAGTAGAGGAAGG+TGG - chr4.2:89348201-89348220 MS.gene75379:intron 55.0%
TATGCTGGGAATCCCAGCCT+GGG - chr4.2:89346991-89347010 MS.gene75379:intron 55.0%
TCGAACATCGATCCCAGGCT+GGG + chr4.2:89347006-89347025 None:intergenic 55.0%
TTATGCTGGGAATCCCAGCC+TGG - chr4.2:89346990-89347009 MS.gene75379:intron 55.0%
TTCGAACATCGATCCCAGGC+TGG + chr4.2:89347007-89347026 None:intergenic 55.0%
! GTGTGAGAGCATGGGGGCAG+TGG - chr4.2:89348143-89348162 MS.gene75379:intron 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 89346726 89348404 89346726 ID=MS.gene75379
chr4.2 mRNA 89346726 89348404 89346726 ID=MS.gene75379.t1;Parent=MS.gene75379
chr4.2 exon 89348250 89348404 89348250 ID=MS.gene75379.t1.exon1;Parent=MS.gene75379.t1
chr4.2 CDS 89348250 89348404 89348250 ID=cds.MS.gene75379.t1;Parent=MS.gene75379.t1
chr4.2 exon 89347806 89347911 89347806 ID=MS.gene75379.t1.exon2;Parent=MS.gene75379.t1
chr4.2 CDS 89347806 89347911 89347806 ID=cds.MS.gene75379.t1;Parent=MS.gene75379.t1
chr4.2 exon 89346726 89346986 89346726 ID=MS.gene75379.t1.exon3;Parent=MS.gene75379.t1
chr4.2 CDS 89346726 89346986 89346726 ID=cds.MS.gene75379.t1;Parent=MS.gene75379.t1
Gene Sequence

>MS.gene75379

ATGAAGGAAAGTGTGGGAAACCCTTTGCACCTAAAATCAGTGAATCATATCTCACTCATATGCAGATCAGTTGAAGAGTCAATAGATTTCTACCAGAATGTTCTTGGTTTCTTCCCAATAAGAAGGCCTGGTTCTTTTGATTTTGATGGAGCATGGTAATTTCACATAATACATCAATACATAAACTTTTTGTATAATATATAATATAGTATAAGATTTGTATTAGATTTTTCAATTTTTTTGTTAAAACGGCCATTGTTAGTATTATGCTGGGAATCCCAGCCTGGGATCGATGTTCGAACTTCGAAATCTTCACATCTTATCACTCTCCACTTTAACTAATATTTTTCAATTGAAAACAACTTAAAAGGGGAAATTAAAATGATACTTTTGTTCCCTCAAAATTTAATAATTTTTGTTAGAGAATTTAATAAACTTTTGCTTGGTTTTCTTAATGAAAATTGATTTTTGCATGTGGTGACCTAATTTGCAGGCTATTTGGCTATGGTATTGGTATTCATTTGCTAGAAGCAGAGAACCCAGAGACGTTACCAAGGAAGAAAGAAATAAATCCAAAGGATAATCACATATCTTTCCAGGTCAGATTTTTCACTAAACTTAACCTTATTGATTACGTTTCAAAATTTGGAAGAAAAAAAAAAGTGTGACTTAGAAAGAAACAAAATAAAAGACGTACTTCAATAAATGAAAGAACTTGATAAAAAATACATTGAACCTAAAAGTGACGCATAGAAAAATCCAAATTTAAAACTAAATATAGATCATACCAAATTTAAATTTAAAACTAAAACACTCACCTAGTCATCATAGACACGTTTATGTTATCCTTTTTAAGGATATGCAATGGCTTTTAAGGATCTTATCCTCTAAGGTTGCTTCAAATTGCAATAGAATATAGAGCCGAATCATGTAATTTTTTGCACTGCACGGTGCACTCTATTGTAGAGTCATTGAATTAAGAAAGAAAAATTAGTCTAAAGAAAAATTAGTCTATGTGAGCTTAACTCGGTTGGTAGGGACAATGTATAATATATGCAGAGGTCGGGGTTCAAACTCCAGACATCCCGTATTTAAAATGTGTGAGCTTCAGCCACTAGTCTCCTTGATAAAAAAAAATATATATTACTATCCAACTTTCTTAATTTAATGGTATTGCATCGTGCAATTGTAGTAAAGGATTATACAAGTTTTAGCTTTTTTTGTTGTTAACCATTCGATTCTCAGGGAAAAGAGCTCTGGTAATTCGGAGTTCGACCGTGAGGTAAGTATAGTCTGATCAATATTTGTTTCATCAGAAATTAAACTTGGATTTTCCTCAACAATTTGTCATTTATCGGAGCTTATTAACCATTTAATATGAAATTTTGTGTTTGAACTTTGAATTGGTTGATGTGTAGTGTGAGAGCATGGGGGCAGTGGAGAAAAAGCTGAAAGAAATGGAAATCAATTATGTTCGAGCAAGAGTAGAGGAAGGTGGGATTGAAGTGGATCAGCTATTTTTCCATGACCCAGATGGTTTCATGATTGAGATATGCAATTGTGATAGTCTTCCTGTGATTCCATTAGTTGGTGAGGTAGCAAGATCATGCTCACGATTGAATCTTCACATAATGCAGAATCAGAATCAGCAGAATCAGATACAAAAGATTGTGAAGTGA

Protein sequence

>MS.gene75379.t1

MKESVGNPLHLKSVNHISLICRSVEESIDFYQNVLGFFPIRRPGSFDFDGAWLFGYGIGIHLLEAENPETLPRKKEINPKDNHISFQCESMGAVEKKLKEMEINYVRARVEEGGIEVDQLFFHDPDGFMIEICNCDSLPVIPLVGEVARSCSRLNLHIMQNQNQQNQIQKIVK