AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70809


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70809.t1 MTR_1g081280 79.832 238 20 1 1 210 1 238 5.02e-136 380
MS.gene70809.t1 MTR_1g081280 68.619 239 20 2 1 184 1 239 3.07e-108 311
MS.gene70809.t1 MTR_8g028545 31.159 138 88 3 70 204 91 224 6.41e-20 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70809.t1 AT3G04890 58.286 175 73 0 29 203 33 207 1.56e-70 214
MS.gene70809.t1 AT3G04890 58.286 175 73 0 29 203 37 211 2.16e-70 214
MS.gene70809.t1 AT3G04890 52.795 161 76 0 29 189 33 193 2.24e-56 178
MS.gene70809.t1 AT3G04890 52.795 161 76 0 29 189 37 197 2.76e-56 178
MS.gene70809.t1 AT2G46100 32.203 177 109 5 33 204 60 230 4.82e-21 87.8

Find 41 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATCATCAATACTTGAAAC+TGG 0.314009 1.2:-61115747 None:intergenic
GATCCAACTATTAAATTTAG+TGG 0.322543 1.2:+61116028 MS.gene70809:CDS
GCATAGATACCTTGTTTGTT+GGG 0.356498 1.2:-61115358 None:intergenic
GGCATAGATACCTTGTTTGT+TGG 0.370365 1.2:-61115359 None:intergenic
TGCGTGCATCTTGGAAATTA+AGG 0.376993 1.2:+61116495 MS.gene70809:CDS
TTACCACTAAATTTAATAGT+TGG 0.387007 1.2:-61116031 None:intergenic
TGATGTTCTAATCATCATAA+AGG 0.421681 1.2:+61115764 MS.gene70809:CDS
TGGAAGTGTAAGGCTATTGT+AGG 0.430972 1.2:-61115136 None:intergenic
TGCTGTTGCGGAAACCCCTC+AGG 0.445601 1.2:+61115281 MS.gene70809:CDS
ATAATGCAGGATGTTGAATC+TGG 0.446617 1.2:+61116461 MS.gene70809:intron
AGGCCTCTGATTGCTATTGA+TGG 0.449120 1.2:+61116621 MS.gene70809:CDS
CGCCATGACATTCAACCACC+TGG 0.479324 1.2:-61116845 None:intergenic
GATCTTTAGTAGTCTAATTG+AGG 0.482759 1.2:-61116346 None:intergenic
ATTGAGGCACAGTCGAAGAA+TGG 0.515153 1.2:-61116330 None:intergenic
GGAAGTGTAAGGCTATTGTA+GGG 0.518951 1.2:-61115135 None:intergenic
AGATACCTTGTTTGTTGGGG+AGG 0.519985 1.2:-61115354 None:intergenic
GGACGCCACCCTTGCTGTTG+CGG 0.524042 1.2:+61115269 MS.gene70809:intron
TAGACTACTAAAGATCGAAA+AGG 0.538132 1.2:+61116353 MS.gene70809:CDS
CATAGATACCTTGTTTGTTG+GGG 0.538359 1.2:-61115357 None:intergenic
AGACATTTATTACCTGGGAG+TGG 0.539869 1.2:-61115156 None:intergenic
CATCATCAATACTTGAAACT+GGG 0.541779 1.2:-61115746 None:intergenic
GGGGAGGAGAGAAAAGCCTC+AGG 0.553407 1.2:-61115338 None:intergenic
GCGGAGTGACGGAGCTCCTG+AGG 0.554237 1.2:+61115322 MS.gene70809:CDS
TCGTTCGGCATATTGAGAGT+TGG 0.563467 1.2:+61116774 MS.gene70809:CDS
AGGGGTTTCCGCAACAGCAA+GGG 0.564467 1.2:-61115277 None:intergenic
GATTGCAGTGAGCGGAGTGA+CGG 0.565614 1.2:+61115311 MS.gene70809:CDS
AGCCTTACACTTCCACTCCC+AGG 0.566168 1.2:+61115144 MS.gene70809:CDS
GAGGGGTTTCCGCAACAGCA+AGG 0.568078 1.2:-61115278 None:intergenic
CTGCAATCTTCAGAACCTGA+GGG 0.576531 1.2:-61115296 None:intergenic
TCTCTCCTCCCCAACAAACA+AGG 0.591145 1.2:+61115349 MS.gene70809:CDS
GGTTTCCGCAACAGCAAGGG+TGG 0.592283 1.2:-61115274 None:intergenic
TACCTGGGAGTGGAAGTGTA+AGG 0.601591 1.2:-61115146 None:intergenic
GGACCAACTTAAAACTTCCG+TGG 0.611426 1.2:+61116598 MS.gene70809:intron
ATAGCAATCAGAGGCCTCCA+CGG 0.621582 1.2:-61116615 None:intergenic
ACTGCAATCTTCAGAACCTG+AGG 0.643213 1.2:-61115297 None:intergenic
ATCATCAATACTTGAAACTG+GGG 0.643651 1.2:-61115745 None:intergenic
GTTCTGAAGATTGCAGTGAG+CGG 0.663984 1.2:+61115303 MS.gene70809:CDS
TGCAATCTTCAGAACCTGAG+GGG 0.670652 1.2:-61115295 None:intergenic
GAAGTGTAAGGCTATTGTAG+GGG 0.673629 1.2:-61115134 None:intergenic
CTTCCATCAATAGCAATCAG+AGG 0.678084 1.2:-61116624 None:intergenic
CCAACTTAAAACTTCCGTGG+AGG 0.722693 1.2:+61116601 MS.gene70809:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATATAAATTAATAATGC+AGG + chr1.2:61116448-61116467 MS.gene70809:intron 10.0%
!! ATGAAAAAATATTTGATAAG+AGG - chr1.2:61115852-61115871 None:intergenic 15.0%
!! TGAAAAAATATTTGATAAGA+GGG - chr1.2:61115851-61115870 None:intergenic 15.0%
!! AACACTGCATATTAATAAAT+TGG - chr1.2:61115691-61115710 None:intergenic 20.0%
!! AATAAAGACATTTATTACCT+GGG - chr1.2:61115164-61115183 None:intergenic 20.0%
!! TTACCACTAAATTTAATAGT+TGG - chr1.2:61116034-61116053 None:intergenic 20.0%
!!! TTAAAGATTTGAAACATCTA+GGG - chr1.2:61116177-61116196 None:intergenic 20.0%
!!! TTTAAAGATTTGAAACATCT+AGG - chr1.2:61116178-61116197 None:intergenic 20.0%
! AAACAACTATAAGAGCTAAA+AGG + chr1.2:61116196-61116215 MS.gene70809:intron 25.0%
! AGACTAGCATAAGATATTAT+AGG - chr1.2:61116072-61116091 None:intergenic 25.0%
! ATAAAAGTAGTTGACACATA+TGG - chr1.2:61115509-61115528 None:intergenic 25.0%
! GAATAAAGACATTTATTACC+TGG - chr1.2:61115165-61115184 None:intergenic 25.0%
! GATCCAACTATTAAATTTAG+TGG + chr1.2:61116028-61116047 MS.gene70809:CDS 25.0%
! TGATGTTCTAATCATCATAA+AGG + chr1.2:61115764-61115783 MS.gene70809:CDS 25.0%
!! CTTACTTTGTTTGAGATTTA+GGG + chr1.2:61115963-61115982 MS.gene70809:intron 25.0%
!! TCTTACTTTGTTTGAGATTT+AGG + chr1.2:61115962-61115981 MS.gene70809:intron 25.0%
!!! ATTTTCAAGTTTGAAAAACC+AGG + chr1.2:61116827-61116846 MS.gene70809:CDS 25.0%
AAGTGTTTGTGCTACATAAA+TGG - chr1.2:61115383-61115402 None:intergenic 30.0%
ACATCATCAATACTTGAAAC+TGG - chr1.2:61115750-61115769 None:intergenic 30.0%
ATCATCAATACTTGAAACTG+GGG - chr1.2:61115748-61115767 None:intergenic 30.0%
ATTAACATGCTTAATGAGCA+AGG - chr1.2:61116527-61116546 None:intergenic 30.0%
CATCATCAATACTTGAAACT+GGG - chr1.2:61115749-61115768 None:intergenic 30.0%
GATCTTTAGTAGTCTAATTG+AGG - chr1.2:61116349-61116368 None:intergenic 30.0%
GTTTATTATCTCTCAATCTC+AGG + chr1.2:61116577-61116596 MS.gene70809:intron 30.0%
TAGACTACTAAAGATCGAAA+AGG + chr1.2:61116353-61116372 MS.gene70809:CDS 30.0%
TCTATGATGTATGATCATAC+AGG + chr1.2:61116270-61116289 MS.gene70809:intron 30.0%
TTTAGATTACATGCCAGAAA+AGG - chr1.2:61115938-61115957 None:intergenic 30.0%
! ATTATGAGTCGAAAGTTTTG+AGG - chr1.2:61116704-61116723 None:intergenic 30.0%
! TTCAACATCATTTCCTTTTC+TGG + chr1.2:61115922-61115941 MS.gene70809:intron 30.0%
!! ATTTTGTTTGACAGATCGTT+CGG + chr1.2:61116759-61116778 MS.gene70809:intron 30.0%
ATAATGCAGGATGTTGAATC+TGG + chr1.2:61116461-61116480 MS.gene70809:intron 35.0%
CAACATTGACGCTTAAACAT+TGG - chr1.2:61115476-61115495 None:intergenic 35.0%
CTGAATCTCTTGTTAAGACT+AGG + chr1.2:61115248-61115267 MS.gene70809:intron 35.0%
GATGTATGATCATACAGGTA+GGG + chr1.2:61116275-61116294 MS.gene70809:intron 35.0%
TCGAAATCCATGTTAACTAG+TGG + chr1.2:61116729-61116748 MS.gene70809:intron 35.0%
TGATGTATGATCATACAGGT+AGG + chr1.2:61116274-61116293 MS.gene70809:intron 35.0%
TGTGTATGTGTATGTGTAAG+AGG + chr1.2:61115569-61115588 MS.gene70809:intron 35.0%
! ACATAAGTTGACGATTAGTG+AGG - chr1.2:61115640-61115659 None:intergenic 35.0%
! CATAGATACCTTGTTTGTTG+GGG - chr1.2:61115360-61115379 None:intergenic 35.0%
! GCATAGATACCTTGTTTGTT+GGG - chr1.2:61115361-61115380 None:intergenic 35.0%
! TTCAAGTTTGAAAAACCAGG+TGG + chr1.2:61116830-61116849 MS.gene70809:CDS 35.0%
AGACATTTATTACCTGGGAG+TGG - chr1.2:61115159-61115178 None:intergenic 40.0%
ATGTGTCAAGTGTACGACAT+TGG - chr1.2:61115443-61115462 None:intergenic 40.0%
ATTACTACCAGTGTCATGTC+TGG + chr1.2:61115537-61115556 MS.gene70809:intron 40.0%
CTTCCATCAATAGCAATCAG+AGG - chr1.2:61116627-61116646 None:intergenic 40.0%
GAAGTGTAAGGCTATTGTAG+GGG - chr1.2:61115137-61115156 None:intergenic 40.0%
GCTTAAACATTGGCCAATGT+CGG - chr1.2:61115466-61115485 None:intergenic 40.0%
GTTGCAACCACTAGTTAACA+TGG - chr1.2:61116739-61116758 None:intergenic 40.0%
TGCGTGCATCTTGGAAATTA+AGG + chr1.2:61116495-61116514 MS.gene70809:CDS 40.0%
TGTGTATGTGTAAGAGGTAG+TGG + chr1.2:61115575-61115594 MS.gene70809:intron 40.0%
! CAAATTTTCTGCGTGCATCT+TGG + chr1.2:61116486-61116505 MS.gene70809:CDS 40.0%
! GCAAAAACATGCTGCTTCAA+CGG + chr1.2:61115106-61115125 MS.gene70809:CDS 40.0%
! GGAAGTGTAAGGCTATTGTA+GGG - chr1.2:61115138-61115157 None:intergenic 40.0%
! GGCATAGATACCTTGTTTGT+TGG - chr1.2:61115362-61115381 None:intergenic 40.0%
! TGGAAGTGTAAGGCTATTGT+AGG - chr1.2:61115139-61115158 None:intergenic 40.0%
ACACTTGACACATCCGACAT+TGG + chr1.2:61115450-61115469 MS.gene70809:intron 45.0%
ACTGCAATCTTCAGAACCTG+AGG - chr1.2:61115300-61115319 None:intergenic 45.0%
ATGCATATTTCCCTGGCAGT+TGG - chr1.2:61115616-61115635 None:intergenic 45.0%
ATTGAGGCACAGTCGAAGAA+TGG - chr1.2:61116333-61116352 None:intergenic 45.0%
CCAACTTAAAACTTCCGTGG+AGG + chr1.2:61116601-61116620 MS.gene70809:CDS 45.0%
CTGCAATCTTCAGAACCTGA+GGG - chr1.2:61115299-61115318 None:intergenic 45.0%
CTTCAGAGTGAAGACGTCTT+TGG + chr1.2:61115400-61115419 MS.gene70809:intron 45.0%
GGACCAACTTAAAACTTCCG+TGG + chr1.2:61116598-61116617 MS.gene70809:intron 45.0%
GTGAGGAATGCATATTTCCC+TGG - chr1.2:61115623-61115642 None:intergenic 45.0%
TCGTTCGGCATATTGAGAGT+TGG + chr1.2:61116774-61116793 MS.gene70809:CDS 45.0%
TGCAATCTTCAGAACCTGAG+GGG - chr1.2:61115298-61115317 None:intergenic 45.0%
! AGATACCTTGTTTGTTGGGG+AGG - chr1.2:61115357-61115376 None:intergenic 45.0%
! AGGCCTCTGATTGCTATTGA+TGG + chr1.2:61116621-61116640 MS.gene70809:CDS 45.0%
! GAGGTAGTGGTTCATGTTGT+CGG + chr1.2:61115588-61115607 MS.gene70809:intron 45.0%
!! GTTCTGAAGATTGCAGTGAG+CGG + chr1.2:61115303-61115322 MS.gene70809:CDS 45.0%
!!! CCTCCACGGAAGTTTTAAGT+TGG - chr1.2:61116604-61116623 None:intergenic 45.0%
!!! GACAGCGCTTATTTTGTCAC+AGG + chr1.2:61115795-61115814 MS.gene70809:CDS 45.0%
!!! GAGTCGAAAGTTTTGAGGCA+AGG - chr1.2:61116699-61116718 None:intergenic 45.0%
!!! TCGAAAGTTTTGAGGCAAGG+AGG - chr1.2:61116696-61116715 None:intergenic 45.0%
ATAGCAATCAGAGGCCTCCA+CGG - chr1.2:61116618-61116637 None:intergenic 50.0%
TACCAGTGTCATGTCTGGTC+TGG + chr1.2:61115542-61115561 MS.gene70809:intron 50.0%
TCTCTCCTCCCCAACAAACA+AGG + chr1.2:61115349-61115368 MS.gene70809:CDS 50.0%
! TACCTGGGAGTGGAAGTGTA+AGG - chr1.2:61115149-61115168 None:intergenic 50.0%
AGCCTTACACTTCCACTCCC+AGG + chr1.2:61115144-61115163 MS.gene70809:CDS 55.0%
AGGGGTTTCCGCAACAGCAA+GGG - chr1.2:61115280-61115299 None:intergenic 55.0%
CACCAGACCAGACATGACAC+TGG - chr1.2:61115547-61115566 None:intergenic 55.0%
GATTGCAGTGAGCGGAGTGA+CGG + chr1.2:61115311-61115330 MS.gene70809:CDS 55.0%
GTTGTCGGAACCAACTGCCA+GGG + chr1.2:61115603-61115622 MS.gene70809:intron 55.0%
TGTTGTCGGAACCAACTGCC+AGG + chr1.2:61115602-61115621 MS.gene70809:intron 55.0%
GAGGGGTTTCCGCAACAGCA+AGG - chr1.2:61115281-61115300 None:intergenic 60.0%
GGGGAGGAGAGAAAAGCCTC+AGG - chr1.2:61115341-61115360 None:intergenic 60.0%
GGTTTCCGCAACAGCAAGGG+TGG - chr1.2:61115277-61115296 None:intergenic 60.0%
TGCTGTTGCGGAAACCCCTC+AGG + chr1.2:61115281-61115300 MS.gene70809:CDS 60.0%
!! GGACGCCACCCTTGCTGTTG+CGG + chr1.2:61115269-61115288 MS.gene70809:intron 65.0%
! GCGGAGTGACGGAGCTCCTG+AGG + chr1.2:61115322-61115341 MS.gene70809:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 61115103 61116856 61115103 ID=MS.gene70809
chr1.2 mRNA 61115103 61116856 61115103 ID=MS.gene70809.t1;Parent=MS.gene70809
chr1.2 exon 61115103 61115165 61115103 ID=MS.gene70809.t1.exon1;Parent=MS.gene70809.t1
chr1.2 CDS 61115103 61115165 61115103 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61115270 61115370 61115270 ID=MS.gene70809.t1.exon2;Parent=MS.gene70809.t1
chr1.2 CDS 61115270 61115370 61115270 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61115707 61115816 61115707 ID=MS.gene70809.t1.exon3;Parent=MS.gene70809.t1
chr1.2 CDS 61115707 61115816 61115707 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61115984 61116049 61115984 ID=MS.gene70809.t1.exon4;Parent=MS.gene70809.t1
chr1.2 CDS 61115984 61116049 61115984 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61116292 61116374 61116292 ID=MS.gene70809.t1.exon5;Parent=MS.gene70809.t1
chr1.2 CDS 61116292 61116374 61116292 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61116470 61116516 61116470 ID=MS.gene70809.t1.exon6;Parent=MS.gene70809.t1
chr1.2 CDS 61116470 61116516 61116470 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61116599 61116677 61116599 ID=MS.gene70809.t1.exon7;Parent=MS.gene70809.t1
chr1.2 CDS 61116599 61116677 61116599 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
chr1.2 exon 61116773 61116856 61116773 ID=MS.gene70809.t1.exon8;Parent=MS.gene70809.t1
chr1.2 CDS 61116773 61116856 61116773 ID=cds.MS.gene70809.t1;Parent=MS.gene70809.t1
Gene Sequence

>MS.gene70809

ATGGCAAAAACATGCTGCTTCAACGGAAAATCCCCTACAATAGCCTTACACTTCCACTCCCAGGTAATAAATGTCTTTATTCTTTCTGAGATGAGTTATTTATTTGTAAAGTGATCAAAGTGAATTATTTATATGAAGAAGTTCACTGAATCTCTTGTTAAGACTAGGACGCCACCCTTGCTGTTGCGGAAACCCCTCAGGTTCTGAAGATTGCAGTGAGCGGAGTGACGGAGCTCCTGAGGCTTTTCTCTCCTCCCCAACAAACAAGGTATCTATGCCATTTATGTAGCACAAACACTTCAGAGTGAAGACGTCTTTGGTATTCATCAAACACATGCCAATGTCGTACACTTGACACATCCGACATTGGCCAATGTTTAAGCGTCAATGTTGTGTCTAGTATCCATATGTGTCAACTACTTTTATTTTCTTAAATTACTACCAGTGTCATGTCTGGTCTGGTGTATGTGTATGTGTATGTGTAAGAGGTAGTGGTTCATGTTGTCGGAACCAACTGCCAGGGAAATATGCATTCCTCACTAATCGTCAACTTATGTGTTTATTAATCGTTGAGTGAATCATACTCCAATTTATTAATATGCAGTGTTTTAAGCAGTAACGTTGAGAAACAGAATAATGACTCCCCAGTTTCAAGTATTGATGATGTTCTAATCATCATAAAGGATGATTATGACAGCGCTTATTTTGTCACAGGTAGCTAGCTTGTTTTTCTTTCTTTCAATTTCCCTCTTATCAAATATTTTTTCATGACATTGCTCTTACTTGCTAATTTAGCATCTTTTTGCTATTTGTTTTTAATTCAACATCATTTCCTTTTCTGGCATGTAATCTAAAATTGTCTTACTTTGTTTGAGATTTAGGGAACTTCACTTCTTCAATTTACGCAGAAAATTGTATCTTTGAAGATCCAACTATTAAATTTAGTGGTAAGAATCATGACTTTTACCTATAATATCTTATGCTAGTCTTTCTGTCGCGAATTTTTAATTGATCTTCTTCATCATCAATTTAATTGATCAATAACTAAAAGTTACACATTGCTCTTGTTCTCCCTAGATGTTTCAAATCTTTAAAACAACTATAAGAGCTAAAAGGAGAAAAAAAAAGTGCTATCAGTTTGAAAATGTGTCAATTAGCTGAACTGAATCTATGATGTATGATCATACAGGTAGGGACTTATATGCGCGCAACTTGAAATTACTCGTTCCATTCTTCGACTGTGCCTCAATTAGACTACTAAAGATCGAAAAGGTAGATATTCTTTGTAAATTAACATCTTAAACTACACTTTTTTGCTTCAAAGAAACAGCGCTGTGCTTCACTCATTATATAAATTAATAATGCAGGATGTTGAATCTGGCACAAATTTTCTGCGTGCATCTTGGAAATTAAGGTGCTTACCTTGCTCATTAAGCATGTTAATATGTAACATCTGAGTTAATTTTTTGAAACAGTTTATTATCTCTCAATCTCAGGACCAACTTAAAACTTCCGTGGAGGCCTCTGATTGCTATTGATGGAAGCACTTCTTATGAATTGAATGAAGATTTCAAAGTCAGAATCAAAATGCCTCCTTGCCTCAAAACTTTCGACTCATAATGTGATTCGAAATCCATGTTAACTAGTGGTTGCAACATTTTGTTTGACAGATCGTTCGGCATATTGAGAGTTGGAATGTTTCTGCACTTGAAGCAGTTTTGCAGATTTTCAAGTTTGAAAAACCAGGTGGTTGA

Protein sequence

>MS.gene70809.t1

MAKTCCFNGKSPTIALHFHSQDATLAVAETPQVLKIAVSGVTELLRLFSPPQQTSVLSSNVEKQNNDSPVSSIDDVLIIIKDDYDSAYFVTGNFTSSIYAENCIFEDPTIKFSGRDLYARNLKLLVPFFDCASIRLLKIEKDVESGTNFLRASWKLRTNLKLPWRPLIAIDGSTSYELNEDFKIVRHIESWNVSALEAVLQIFKFEKPGG