AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene074347

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene074347.t1 MTR_4g083680 30.714 140 88 5 12 149 16 148 1.42e-14 68.6
MS.gene074347.t1 MTR_6g027710 33.945 109 66 3 12 117 41 146 3.53e-14 68.6
MS.gene074347.t1 MTR_2g094730 29.703 101 70 1 12 112 3 102 9.72e-13 63.5
MS.gene074347.t1 MTR_4g105170 32.857 140 79 5 12 146 12 141 1.32e-11 60.8
MS.gene074347.t1 MTR_3g073690 31.429 105 67 3 12 114 10 111 2.40e-11 60.5
MS.gene074347.t1 MTR_3g031660 31.148 122 72 4 12 131 8 119 3.69e-11 59.3
MS.gene074347.t1 MTR_3g071590 31.092 119 70 4 12 128 9 117 5.88e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene074347.t1 AT1G16530 30.841 107 70 2 12 116 15 119 2.62e-12 62.4
MS.gene074347.t1 AT1G06280 32.990 97 60 3 12 106 25 118 7.76e-12 61.6
MS.gene074347.t1 AT5G63090 31.469 143 79 5 12 145 12 144 4.72e-11 59.3
MS.gene074347.t1 AT5G63090 31.469 143 79 5 12 145 12 144 4.72e-11 59.3
MS.gene074347.t1 AT5G63090 31.469 143 79 5 12 145 12 144 4.72e-11 59.3
MS.gene074347.t1 AT5G63090 31.469 143 79 5 12 145 12 144 4.72e-11 59.3

Find 69 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACTCCACAGTTGGGAAAT+AGG 0.252755 2.2:-6944064 None:intergenic
TCTTTGTTTGGATCATGATT+AGG 0.270821 2.2:+6943530 None:intergenic
CTTTGTTTGGATCATGATTA+GGG 0.280665 2.2:+6943531 None:intergenic
GAAGGAGTTAATAGATTATA+CGG 0.299232 2.2:+6944090 MS.gene074347:CDS
GGCCCTTGTGCAGCATTGGC+TGG 0.304155 2.2:-6944441 None:intergenic
GGCCCTTGTGCAGCATTGGC+TGG 0.304155 2.2:-6944471 None:intergenic
GGTTCTGCAGGATATCTATT+TGG 0.304685 2.2:-6944260 None:intergenic
CGTTGGCGAATGCTCTTAGA+TGG 0.306790 2.2:+6944172 MS.gene074347:CDS
GGCCCTTGTGCAGCAATGGC+TGG 0.329174 2.2:-6944411 None:intergenic
TGGTCCCGGGCCTCCATATA+TGG 0.351739 2.2:-6944240 None:intergenic
TGGCGGCCCTTGTGCAGCAT+TGG 0.359275 2.2:-6944445 None:intergenic
TGGCGGCCCTTGTGCAGCAT+TGG 0.359275 2.2:-6944475 None:intergenic
GGCCCTTGTGCAGCATCGGC+TGG 0.377247 2.2:-6944381 None:intergenic
GGCCCTTGTGCAGCAGCATT+AGG 0.384624 2.2:-6944351 None:intergenic
GACTCCACAGTTGGGAAATA+GGG 0.390044 2.2:-6944063 None:intergenic
CAGCCAGCCAATGCTGCACA+AGG 0.409089 2.2:+6944468 MS.gene074347:CDS
TAATCTATTAACTCCTTCAT+AGG 0.411601 2.2:-6944085 None:intergenic
AGGGTCGTACCGTCCATATA+TGG 0.421506 2.2:+6944227 MS.gene074347:CDS
GTTGTGGATGTTGCAAAGTT+AGG 0.421564 2.2:+6944004 MS.gene074347:CDS
TGGTGGCCCTTGTGCAGCAA+TGG 0.422296 2.2:-6944415 None:intergenic
AGGATCTGCATGCCTGTTGT+TGG 0.424351 2.2:-6944199 None:intergenic
ATTCGTTAACTTGGTTCTGC+AGG 0.436549 2.2:-6944272 None:intergenic
GCAGGATATCTATTTGGTCC+CGG 0.451870 2.2:-6944254 None:intergenic
TGTGCAGCATTGGCTGGCTG+TGG 0.468843 2.2:-6944435 None:intergenic
AGGAGGGCAAAGTGTGTTCA+AGG 0.471420 2.2:+6944024 MS.gene074347:CDS
TGTGCAGCAATGGCTGGCTG+TGG 0.481082 2.2:-6944405 None:intergenic
TGTGCAGCATCGGCTGGCTG+TGG 0.483226 2.2:-6944375 None:intergenic
CAGCCAGCCATTGCTGCACA+AGG 0.484315 2.2:+6944408 MS.gene074347:CDS
TTAGATGGGAAGCCAACAAC+AGG 0.485289 2.2:+6944187 MS.gene074347:CDS
GCTGTTGGTATTCGTTAACT+TGG 0.487276 2.2:-6944281 None:intergenic
CAGCCAGCCAATGCTGCACA+AGG 0.493671 2.2:+6944438 MS.gene074347:CDS
TGTGCAGCATTGGCTGGCTG+TGG 0.496961 2.2:-6944465 None:intergenic
TTGAAAAGATCAAGAAGCTC+TGG 0.500173 2.2:-6944495 None:intergenic
GCAGCAATGGCTGGCTGTGG+TGG 0.502838 2.2:-6944402 None:intergenic
CAACCTAATGCTGCTGCACA+AGG 0.508149 2.2:+6944348 MS.gene074347:CDS
CAGCCAGCCGATGCTGCACA+AGG 0.513999 2.2:+6944378 MS.gene074347:CDS
GCAGCATTGGCTGGCTGTGG+TGG 0.514659 2.2:-6944432 None:intergenic
TGGTGGCCCTTGTGCAGCAT+CGG 0.514892 2.2:-6944385 None:intergenic
ATACGGTTTCAAACGAGTAC+AGG 0.519560 2.2:+6944107 MS.gene074347:CDS
GTGGATGTTGCAAAGTTAGG+AGG 0.529022 2.2:+6944007 MS.gene074347:CDS
CCAACTGTGGAGTCCTATGA+AGG 0.531625 2.2:+6944072 MS.gene074347:CDS
CCTTCATAGGACTCCACAGT+TGG 0.532239 2.2:-6944072 None:intergenic
CAGGATATCTATTTGGTCCC+GGG 0.536492 2.2:-6944253 None:intergenic
TATATGGACGGTACGACCCT+CGG 0.540592 2.2:-6944224 None:intergenic
CTTCATAGGACTCCACAGTT+GGG 0.540765 2.2:-6944071 None:intergenic
ACCGTCCATATATGGAGGCC+CGG 0.542315 2.2:+6944235 MS.gene074347:CDS
GCAGCATCGGCTGGCTGTGG+TGG 0.555359 2.2:-6944372 None:intergenic
GCAGCATTGGCTGGCTGTGG+CGG 0.556701 2.2:-6944462 None:intergenic
TGCTCCCTATTTCCCAACTG+TGG 0.562996 2.2:+6944059 MS.gene074347:CDS
GGACGGTACGACCCTCGGAT+AGG 0.563969 2.2:-6944219 None:intergenic
AGATCAGCAGAGGCATTCGT+TGG 0.587527 2.2:+6944155 MS.gene074347:CDS
AACAGCAACTGCATACGCTT+AGG 0.590820 2.2:+6944298 MS.gene074347:CDS
CCGTCCATATATGGAGGCCC+GGG 0.593932 2.2:+6944236 MS.gene074347:CDS
GTTGGCGAATGCTCTTAGAT+GGG 0.596339 2.2:+6944173 MS.gene074347:CDS
GTTTCAAACGAGTACAGGAG+TGG 0.609853 2.2:+6944112 MS.gene074347:CDS
TAAGCGTATGCAGTTGCTGT+TGG 0.610952 2.2:-6944296 None:intergenic
TGGATGTTGCAAAGTTAGGA+GGG 0.616574 2.2:+6944008 MS.gene074347:CDS
TCTGCAGACATGGTGCGTTG+TGG 0.620868 2.2:+6943988 MS.gene074347:intron
CCCGGGCCTCCATATATGGA+CGG 0.622205 2.2:-6944236 None:intergenic
AGCCAGCCGATGCTGCACAA+GGG 0.624227 2.2:+6944379 MS.gene074347:CDS
AGCCAGCCATTGCTGCACAA+GGG 0.629628 2.2:+6944409 MS.gene074347:CDS
AGCCAGCCAATGCTGCACAA+GGG 0.635294 2.2:+6944439 MS.gene074347:CDS
AGCCAGCCAATGCTGCACAA+GGG 0.635294 2.2:+6944469 MS.gene074347:CDS
AAAAGATCAAGAAGCTCTGG+CGG 0.635639 2.2:-6944492 None:intergenic
GGCATGCAGATCCTATCCGA+GGG 0.646719 2.2:+6944208 MS.gene074347:CDS
AACCTAATGCTGCTGCACAA+GGG 0.655555 2.2:+6944349 MS.gene074347:CDS
AGGCATGCAGATCCTATCCG+AGG 0.661960 2.2:+6944207 MS.gene074347:CDS
GTGCACAAACAGATCAGCAG+AGG 0.666466 2.2:+6944145 MS.gene074347:CDS
GTCGTACCGTCCATATATGG+AGG 0.680882 2.2:+6944230 MS.gene074347:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CCAAACAAAATAAAATGAAA+TGG - chr2.2:6943628-6943647 None:intergenic 20.0%
!!! CCATTTCATTTTATTTTGTT+TGG + chr2.2:6943625-6943644 MS.gene074347:intron 20.0%
!!! TGATTTTTATTTCTGTGAAT+TGG + chr2.2:6943594-6943613 MS.gene074347:intron 20.0%
! AAGATTCTATCTAATAACAC+AGG - chr2.2:6943911-6943930 None:intergenic 25.0%
! GAAGGAGTTAATAGATTATA+CGG + chr2.2:6944090-6944109 MS.gene074347:CDS 25.0%
! GTTTGGATCATGATTAATTA+GGG + chr2.2:6943642-6943661 MS.gene074347:intron 25.0%
! TAATCTATTAACTCCTTCAT+AGG - chr2.2:6944088-6944107 None:intergenic 25.0%
! TCACAGAAATAAAAATCACT+AGG - chr2.2:6943592-6943611 None:intergenic 25.0%
! TGTTTGGATCATGATTAATT+AGG + chr2.2:6943641-6943660 MS.gene074347:intron 25.0%
!! GTGTTATTAGATAGAATCTT+TGG + chr2.2:6943911-6943930 MS.gene074347:intron 25.0%
!!! TTTTGTTTGGATCATGATTA+CGG + chr2.2:6943638-6943657 MS.gene074347:intron 25.0%
!!! TAGGGTCATGATTAGTTTTA+AGG + chr2.2:6943660-6943679 MS.gene074347:intron 30.0%
TAGGGTCAGAATTAGTAGTA+AGG + chr2.2:6943549-6943568 MS.gene074347:intron 35.0%
TGTTTGTTTATCTGCAGACA+TGG + chr2.2:6943978-6943997 MS.gene074347:intron 35.0%
TTGAAAAGATCAAGAAGCTC+TGG - chr2.2:6944498-6944517 None:intergenic 35.0%
!!! GGTCATGATTAGTTTTAAGG+TGG + chr2.2:6943663-6943682 MS.gene074347:intron 35.0%
ATACGGTTTCAAACGAGTAC+AGG + chr2.2:6944107-6944126 MS.gene074347:CDS 40.0%
GCTGTTGGTATTCGTTAACT+TGG - chr2.2:6944284-6944303 None:intergenic 40.0%
GGTTCTGCAGGATATCTATT+TGG - chr2.2:6944263-6944282 None:intergenic 40.0%
GTTGTGGATGTTGCAAAGTT+AGG + chr2.2:6944004-6944023 MS.gene074347:CDS 40.0%
TGGATGTTGCAAAGTTAGGA+GGG + chr2.2:6944008-6944027 MS.gene074347:CDS 40.0%
! AAAAGATCAAGAAGCTCTGG+CGG - chr2.2:6944495-6944514 None:intergenic 40.0%
!! ATTCGTTAACTTGGTTCTGC+AGG - chr2.2:6944275-6944294 None:intergenic 40.0%
AACAGCAACTGCATACGCTT+AGG + chr2.2:6944298-6944317 MS.gene074347:CDS 45.0%
AACCTAATGCTGCTGCACAA+GGG + chr2.2:6944349-6944368 MS.gene074347:CDS 45.0%
CAGGATATCTATTTGGTCCC+GGG - chr2.2:6944256-6944275 None:intergenic 45.0%
CTTCATAGGACTCCACAGTT+GGG - chr2.2:6944074-6944093 None:intergenic 45.0%
GACTCCACAGTTGGGAAATA+GGG - chr2.2:6944066-6944085 None:intergenic 45.0%
GCAGGATATCTATTTGGTCC+CGG - chr2.2:6944257-6944276 None:intergenic 45.0%
GTGGATGTTGCAAAGTTAGG+AGG + chr2.2:6944007-6944026 MS.gene074347:CDS 45.0%
GTTGGCGAATGCTCTTAGAT+GGG + chr2.2:6944173-6944192 MS.gene074347:CDS 45.0%
GTTTCAAACGAGTACAGGAG+TGG + chr2.2:6944112-6944131 MS.gene074347:CDS 45.0%
TAAGCGTATGCAGTTGCTGT+TGG - chr2.2:6944299-6944318 None:intergenic 45.0%
TTAGATGGGAAGCCAACAAC+AGG + chr2.2:6944187-6944206 MS.gene074347:CDS 45.0%
AGGAGGGCAAAGTGTGTTCA+AGG + chr2.2:6944024-6944043 MS.gene074347:CDS 50.0%
AGGATCTGCATGCCTGTTGT+TGG - chr2.2:6944202-6944221 None:intergenic 50.0%
AGGGTCGTACCGTCCATATA+TGG + chr2.2:6944227-6944246 MS.gene074347:CDS 50.0%
CAACCTAATGCTGCTGCACA+AGG + chr2.2:6944348-6944367 MS.gene074347:CDS 50.0%
CCAACTGTGGAGTCCTATGA+AGG + chr2.2:6944072-6944091 MS.gene074347:CDS 50.0%
CCTTCATAGGACTCCACAGT+TGG - chr2.2:6944075-6944094 None:intergenic 50.0%
CGTTGGCGAATGCTCTTAGA+TGG + chr2.2:6944172-6944191 MS.gene074347:CDS 50.0%
GGACTCCACAGTTGGGAAAT+AGG - chr2.2:6944067-6944086 None:intergenic 50.0%
GTCGTACCGTCCATATATGG+AGG + chr2.2:6944230-6944249 MS.gene074347:CDS 50.0%
GTGCACAAACAGATCAGCAG+AGG + chr2.2:6944145-6944164 MS.gene074347:CDS 50.0%
TATATGGACGGTACGACCCT+CGG - chr2.2:6944227-6944246 None:intergenic 50.0%
TGCTCCCTATTTCCCAACTG+TGG + chr2.2:6944059-6944078 MS.gene074347:CDS 50.0%
!! AGATCAGCAGAGGCATTCGT+TGG + chr2.2:6944155-6944174 MS.gene074347:CDS 50.0%
ACCGTCCATATATGGAGGCC+CGG + chr2.2:6944235-6944254 MS.gene074347:CDS 55.0%
AGCCAGCCAATGCTGCACAA+GGG + chr2.2:6944439-6944458 MS.gene074347:CDS 55.0%
AGCCAGCCATTGCTGCACAA+GGG + chr2.2:6944409-6944428 MS.gene074347:CDS 55.0%
AGGCATGCAGATCCTATCCG+AGG + chr2.2:6944207-6944226 MS.gene074347:CDS 55.0%
GGCATGCAGATCCTATCCGA+GGG + chr2.2:6944208-6944227 MS.gene074347:CDS 55.0%
TCTGCAGACATGGTGCGTTG+TGG + chr2.2:6943988-6944007 MS.gene074347:intron 55.0%
AGCCAGCCGATGCTGCACAA+GGG + chr2.2:6944379-6944398 MS.gene074347:CDS 60.0%
CAGCCAGCCAATGCTGCACA+AGG + chr2.2:6944438-6944457 MS.gene074347:CDS 60.0%
CAGCCAGCCATTGCTGCACA+AGG + chr2.2:6944408-6944427 MS.gene074347:CDS 60.0%
CCCGGGCCTCCATATATGGA+CGG - chr2.2:6944239-6944258 None:intergenic 60.0%
CCGTCCATATATGGAGGCCC+GGG + chr2.2:6944236-6944255 MS.gene074347:CDS 60.0%
GGCCCTTGTGCAGCAGCATT+AGG - chr2.2:6944354-6944373 None:intergenic 60.0%
TGGTCCCGGGCCTCCATATA+TGG - chr2.2:6944243-6944262 None:intergenic 60.0%
TGGTGGCCCTTGTGCAGCAA+TGG - chr2.2:6944418-6944437 None:intergenic 60.0%
TGGTGGCCCTTGTGCAGCAT+CGG - chr2.2:6944388-6944407 None:intergenic 60.0%
! TGTGCAGCAATGGCTGGCTG+TGG - chr2.2:6944408-6944427 None:intergenic 60.0%
!! TGTGCAGCATTGGCTGGCTG+TGG - chr2.2:6944438-6944457 None:intergenic 60.0%
CAGCCAGCCGATGCTGCACA+AGG + chr2.2:6944378-6944397 MS.gene074347:CDS 65.0%
GGACGGTACGACCCTCGGAT+AGG - chr2.2:6944222-6944241 None:intergenic 65.0%
GGCCCTTGTGCAGCAATGGC+TGG - chr2.2:6944414-6944433 None:intergenic 65.0%
TGGCGGCCCTTGTGCAGCAT+TGG - chr2.2:6944448-6944467 None:intergenic 65.0%
! GCAGCAATGGCTGGCTGTGG+TGG - chr2.2:6944405-6944424 None:intergenic 65.0%
!! GCAGCATTGGCTGGCTGTGG+CGG - chr2.2:6944435-6944454 None:intergenic 65.0%
!! GCAGCATTGGCTGGCTGTGG+TGG - chr2.2:6944435-6944454 None:intergenic 65.0%
!! GGCCCTTGTGCAGCATTGGC+TGG - chr2.2:6944444-6944463 None:intergenic 65.0%
!! TGTGCAGCATCGGCTGGCTG+TGG - chr2.2:6944378-6944397 None:intergenic 65.0%
!! GCAGCATCGGCTGGCTGTGG+TGG - chr2.2:6944375-6944394 None:intergenic 70.0%
!! GGCCCTTGTGCAGCATCGGC+TGG - chr2.2:6944384-6944403 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 6943544 6944524 6943544 ID=MS.gene074347
chr2.2 mRNA 6943544 6944524 6943544 ID=MS.gene074347.t1;Parent=MS.gene074347
chr2.2 exon 6943544 6943565 6943544 ID=MS.gene074347.t1.exon1;Parent=MS.gene074347.t1
chr2.2 CDS 6943544 6943565 6943544 ID=cds.MS.gene074347.t1;Parent=MS.gene074347.t1
chr2.2 exon 6943995 6944524 6943995 ID=MS.gene074347.t1.exon2;Parent=MS.gene074347.t1
chr2.2 CDS 6943995 6944524 6943995 ID=cds.MS.gene074347.t1;Parent=MS.gene074347.t1
Gene Sequence

>MS.gene074347

ATGATTAGGGTCAGAATTAGTAGTAAGGTAGTTATTATTTACATGCCTAGTGATTTTTATTTCTGTGAATTGGATTTTTTACCATTTCATTTTATTTTGTTTGGATCATGATTAATTAGGGTCATGATTAGTTTTAAGGTGGTTATTATTTACATGCCTAGTGATTTTTATTTCTGTGAATTGAATTTTTTACCATTTCATTTTATTTTGTTTGGATCATGATTAATTAGGGTCATGATTAGTTTTAAGGTGGTTATTATTTACATGCCTAGTGATTTTTATTTCTGTGAATTGGATTTTTTACCATTTCATTTTATTTTGTTTGGATCATGATTACGGTGATAATTAACGAATTACTTTTGTACCTGTGTTATTAGATAGAATCTTTGGAATTCAATAATGTTCTATATGTTTGAATTTAATAAGCTGAATATTGTTTGTTTATCTGCAGACATGGTGCGTTGTGGATGTTGCAAAGTTAGGAGGGCAAAGTGTGTTCAAGGAGAATGCATCTATGCTCCCTATTTCCCAACTGTGGAGTCCTATGAAGGAGTTAATAGATTATACGGTTTCAAACGAGTACAGGAGTGGATTAACAATAGTGCACAAACAGATCAGCAGAGGCATTCGTTGGCGAATGCTCTTAGATGGGAAGCCAACAACAGGCATGCAGATCCTATCCGAGGGTCGTACCGTCCATATATGGAGGCCCGGGACCAAATAGATATCCTGCAGAACCAAGTTAACGAATACCAACAGCAACTGCATACGCTTAGGCTAAGAGTCGAACAATTGCAAGCACAGCAACCTAATGCTGCTGCACAAGGGCCACCACAGCCAGCCGATGCTGCACAAGGGCCACCACAGCCAGCCATTGCTGCACAAGGGCCACCACAGCCAGCCAATGCTGCACAAGGGCCGCCACAGCCAGCCAATGCTGCACAAGGGCCGCCAGAGCTTCTTGATCTTTTCAAATTTTAG
Protein sequence

>MS.gene074347.t1

MIRVRISNMVRCGCCKVRRAKCVQGECIYAPYFPTVESYEGVNRLYGFKRVQEWINNSAQTDQQRHSLANALRWEANNRHADPIRGSYRPYMEARDQIDILQNQVNEYQQQLHTLRLRVEQLQAQQPNAAAQGPPQPADAAQGPPQPAIAAQGPPQPANAAQGPPQPANAAQGPPELLDLFKF