AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene043184

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043184.t1 AT1G72030 51.648 182 80 4 14 188 60 240 6.31e-49 160

Find 34 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGAGTACCTTTACATTTC+AGG 0.191164 4.2:-71075380 MS.gene043184:CDS
TAGCTGTATCCAATGCTTTC+AGG 0.242812 4.2:-71075355 MS.gene043184:intron
TTTGTTCTTTCAATTCTTTA+AGG 0.264149 4.2:-71076256 MS.gene043184:intron
TAGAGCCTATGAAGAAGATT+TGG 0.287218 4.2:-71075000 MS.gene043184:CDS
AAATAGGCTGAAGTGCTTTC+AGG 0.312360 4.2:-71075723 MS.gene043184:intron
AAACTCATTACCCCACAAAT+TGG 0.313360 4.2:+71075031 None:intergenic
ATTATATAGGTATGCTTGTT+TGG 0.327298 4.2:-71075504 MS.gene043184:intron
AATCTTCTTCATAGGCTCTA+AGG 0.371477 4.2:+71075003 None:intergenic
ACAAGCTTAAATACTCTGAT+AGG 0.390019 4.2:-71075692 MS.gene043184:intron
TGAAAATATGAGGCAAAAGT+TGG 0.401682 4.2:-71076400 MS.gene043184:CDS
AGAGCCTATGAAGAAGATTT+GGG 0.427743 4.2:-71074999 MS.gene043184:CDS
AGCACCCAAATCTTCTTCAT+AGG 0.429328 4.2:+71074995 None:intergenic
GTGAATATGGATGGAGGATA+AGG 0.442867 4.2:-71076365 MS.gene043184:CDS
AGGTACTCTTGTGCATCAGC+AGG 0.454568 4.2:+71075392 None:intergenic
GATTCATCAAAGGAACTTGT+AGG 0.457006 4.2:-71075464 MS.gene043184:CDS
GTGACATAATATCCAATTTG+TGG 0.473968 4.2:-71075043 MS.gene043184:CDS
TGACATAATATCCAATTTGT+GGG 0.486196 4.2:-71075042 MS.gene043184:CDS
AGAAAGGTAGTGAAAATATG+AGG 0.506511 4.2:-71076410 MS.gene043184:CDS
AAATCATTGAAAAGAGCTAC+AGG 0.509660 4.2:+71076276 None:intergenic
CGAACATTGTACACAAATGC+TGG 0.511040 4.2:-71074972 MS.gene043184:CDS
ACAATCAAAGAGAGAGCTCA+AGG 0.518793 4.2:-71074547 MS.gene043184:CDS
GTGATGTTGGAGATTGAGAA+AGG 0.519667 4.2:-71076426 MS.gene043184:CDS
CAGCTATTCCTGAAATGTAA+AGG 0.520945 4.2:+71075372 None:intergenic
GGAGATGTTCAAGCACATCT+TGG 0.525750 4.2:+71075414 None:intergenic
ATATAGGTATGCTTGTTTGG+TGG 0.525798 4.2:-71075501 MS.gene043184:intron
GTGGATCTTTAGAAACAAGT+TGG 0.539203 4.2:+71074946 None:intergenic
CCAACCCAATTACTTGTCCA+TGG 0.539516 4.2:+71074924 None:intergenic
TGGTGTGTGAATATGGATGG+AGG 0.600815 4.2:-71076371 MS.gene043184:CDS
GGTACTCTTGTGCATCAGCA+GGG 0.603876 4.2:+71075393 None:intergenic
CAATCAAAGAGAGAGCTCAA+GGG 0.619765 4.2:-71074546 MS.gene043184:CDS
GAATGATCAAGATTCATCAA+AGG 0.633438 4.2:-71075474 MS.gene043184:CDS
ACCCAATTACTTGTCCATGG+TGG 0.661718 4.2:+71074927 None:intergenic
TTGTTTCTAAAGATCCACCA+TGG 0.675137 4.2:-71074941 MS.gene043184:CDS
GACATAATATCCAATTTGTG+GGG 0.680586 4.2:-71075041 MS.gene043184:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAATATTCTACTTAATT+AGG + chr4.2:71076095-71076114 None:intergenic 10.0%
!!! GTCAAAATTTATTATTTTAA+AGG + chr4.2:71075140-71075159 None:intergenic 10.0%
!! ATCATTTATCAATATGAAAT+TGG - chr4.2:71075319-71075338 MS.gene043184:intron 15.0%
!! TGTATATTATGCTATTATAT+AGG - chr4.2:71075433-71075452 MS.gene043184:CDS 15.0%
!! TGTATTATATATGTGAAAAT+CGG + chr4.2:71074992-71075011 None:intergenic 15.0%
!!! ATATTCAAGGATTTTTAAAT+AGG - chr4.2:71075653-71075672 MS.gene043184:intron 15.0%
!! AACATTAAACAACCATTTAA+AGG + chr4.2:71075190-71075209 None:intergenic 20.0%
!! ATTTAAAGGCAAATAAAATG+TGG + chr4.2:71075176-71075195 None:intergenic 20.0%
!! TTCAGACAAAATATTAGAAA+TGG - chr4.2:71076120-71076139 MS.gene043184:intron 20.0%
!! TTTGTTCTTTCAATTCTTTA+AGG - chr4.2:71074694-71074713 MS.gene043184:intron 20.0%
!!! ACATTTTATTTGCCTTTAAA+TGG - chr4.2:71075175-71075194 MS.gene043184:intron 20.0%
!!! AGTTACAAGATTTTGAAATA+TGG - chr4.2:71074810-71074829 MS.gene043184:intron 20.0%
! AATTTATTATCTCATGCTTC+AGG + chr4.2:71075386-71075405 None:intergenic 25.0%
! ATTATATAGGTATGCTTGTT+TGG - chr4.2:71075446-71075465 MS.gene043184:CDS 25.0%
! TGACATAATATCCAATTTGT+GGG - chr4.2:71075908-71075927 MS.gene043184:intron 25.0%
! TTTGATTGATCTACTGTATA+AGG - chr4.2:71076341-71076360 MS.gene043184:CDS 25.0%
!!! TACAAGATTTTGAAATATGG+TGG - chr4.2:71074813-71074832 MS.gene043184:intron 25.0%
!!! TTACATCTCTGAAATATTCA+AGG - chr4.2:71075640-71075659 MS.gene043184:intron 25.0%
AAAGGCAAATAAAATGTGGT+AGG + chr4.2:71075172-71075191 None:intergenic 30.0%
AAATCATTGAAAAGAGCTAC+AGG + chr4.2:71074677-71074696 None:intergenic 30.0%
AAGAAAATGTCGTGTTCTTA+TGG - chr4.2:71076049-71076068 MS.gene043184:intron 30.0%
ACAAGCTTAAATACTCTGAT+AGG - chr4.2:71075258-71075277 MS.gene043184:intron 30.0%
ACGTTAATGAGACTAATTGA+TGG - chr4.2:71075844-71075863 MS.gene043184:intron 30.0%
AGAAAGGTAGTGAAAATATG+AGG - chr4.2:71074540-71074559 MS.gene043184:CDS 30.0%
GAAATTGCTTCTCAAATTGT+AGG - chr4.2:71074879-71074898 MS.gene043184:intron 30.0%
GAATGATCAAGATTCATCAA+AGG - chr4.2:71075476-71075495 MS.gene043184:CDS 30.0%
GAATGCAGATGAGATAAAAA+TGG - chr4.2:71074619-71074638 MS.gene043184:intron 30.0%
GACATAATATCCAATTTGTG+GGG - chr4.2:71075909-71075928 MS.gene043184:intron 30.0%
GTGACATAATATCCAATTTG+TGG - chr4.2:71075907-71075926 MS.gene043184:intron 30.0%
TATTCATTCTTGACCCAAAT+AGG - chr4.2:71075211-71075230 MS.gene043184:intron 30.0%
TCTCTACTTATTGTCCTTAA+AGG + chr4.2:71074953-71074972 None:intergenic 30.0%
TGAAAATATGAGGCAAAAGT+TGG - chr4.2:71074550-71074569 MS.gene043184:CDS 30.0%
TGATGACACTGAAATAGTAT+TGG + chr4.2:71076226-71076245 None:intergenic 30.0%
TGGTTAGAATTTCTCCTTTA+AGG - chr4.2:71074936-71074955 MS.gene043184:intron 30.0%
! AGTTTTCTTTTTGTGTGTTC+AGG + chr4.2:71075709-71075728 None:intergenic 30.0%
! GTTTTCTTTTTGTGTGTTCA+GGG + chr4.2:71075708-71075727 None:intergenic 30.0%
!! TTTTAATCACCTGAAAGCAT+TGG + chr4.2:71075607-71075626 None:intergenic 30.0%
!!! GATTTTTTGGTGTGTGAATA+TGG - chr4.2:71074572-71074591 MS.gene043184:CDS 30.0%
AAAATGTGGTAGGTGCTTAA+TGG + chr4.2:71075162-71075181 None:intergenic 35.0%
AAACTCATTACCCCACAAAT+TGG + chr4.2:71075922-71075941 None:intergenic 35.0%
AATCTTCTTCATAGGCTCTA+AGG + chr4.2:71075950-71075969 None:intergenic 35.0%
AGAGCCTATGAAGAAGATTT+GGG - chr4.2:71075951-71075970 MS.gene043184:intron 35.0%
AGGACAATAAGTAGAGAATC+TGG - chr4.2:71074956-71074975 MS.gene043184:CDS 35.0%
ATATAGGTATGCTTGTTTGG+TGG - chr4.2:71075449-71075468 MS.gene043184:CDS 35.0%
ATCAAAGCAGATGTTGAACT+AGG + chr4.2:71076327-71076346 None:intergenic 35.0%
ATTCTAACCACTGCACAATT+TGG + chr4.2:71074926-71074945 None:intergenic 35.0%
ATTTCACCATCAAGAGAGTT+TGG + chr4.2:71074864-71074883 None:intergenic 35.0%
CAGCTATTCCTGAAATGTAA+AGG + chr4.2:71075581-71075600 None:intergenic 35.0%
CGCTGAATAGTTCAGTTAAT+AGG + chr4.2:71075019-71075038 None:intergenic 35.0%
GATTCATCAAAGGAACTTGT+AGG - chr4.2:71075486-71075505 MS.gene043184:CDS 35.0%
TAGAGCCTATGAAGAAGATT+TGG - chr4.2:71075950-71075969 MS.gene043184:intron 35.0%
TATTTCAGTGTCATCAATCG+TGG - chr4.2:71076230-71076249 MS.gene043184:intron 35.0%
TTCTAACCACTGCACAATTT+GGG + chr4.2:71074925-71074944 None:intergenic 35.0%
TTGCTTCTCAAATTGTAGGA+TGG - chr4.2:71074883-71074902 MS.gene043184:intron 35.0%
TTTGATCCAAACTCTCTTGA+TGG - chr4.2:71074855-71074874 MS.gene043184:intron 35.0%
! GTGGATCTTTAGAAACAAGT+TGG + chr4.2:71076007-71076026 None:intergenic 35.0%
! TATTTTCCCAAATTGTGCAG+TGG - chr4.2:71074916-71074935 MS.gene043184:intron 35.0%
!! CAAGAGTACCTTTACATTTC+AGG - chr4.2:71075570-71075589 MS.gene043184:intron 35.0%
!! TTGTTTCTAAAGATCCACCA+TGG - chr4.2:71076009-71076028 MS.gene043184:intron 35.0%
!! TTTTGGTGTGTGAATATGGA+TGG - chr4.2:71074576-71074595 MS.gene043184:CDS 35.0%
!!! GAGGCAAAAGTTGGATTTTT+TGG - chr4.2:71074559-71074578 MS.gene043184:CDS 35.0%
ACAATCAAAGAGAGAGCTCA+AGG - chr4.2:71076403-71076422 MS.gene043184:CDS 40.0%
AGAAGGAAAAGACGATTGCA+AGG + chr4.2:71076298-71076317 None:intergenic 40.0%
AGCACCCAAATCTTCTTCAT+AGG + chr4.2:71075958-71075977 None:intergenic 40.0%
ATCCACCATGGACAAGTAAT+TGG - chr4.2:71076021-71076040 MS.gene043184:intron 40.0%
CAATCAAAGAGAGAGCTCAA+GGG - chr4.2:71076404-71076423 MS.gene043184:CDS 40.0%
CGAACATTGTACACAAATGC+TGG - chr4.2:71075978-71075997 MS.gene043184:intron 40.0%
GTGAATATGGATGGAGGATA+AGG - chr4.2:71074585-71074604 MS.gene043184:CDS 40.0%
TAGCTGTATCCAATGCTTTC+AGG - chr4.2:71075595-71075614 MS.gene043184:intron 40.0%
TCCACCATGGACAAGTAATT+GGG - chr4.2:71076022-71076041 MS.gene043184:intron 40.0%
TCGCTAACATTAGCAACTAG+TGG - chr4.2:71075771-71075790 MS.gene043184:intron 40.0%
! AAATAGGCTGAAGTGCTTTC+AGG - chr4.2:71075227-71075246 MS.gene043184:intron 40.0%
! ATGAGACTAATTGATGGCAC+AGG - chr4.2:71075850-71075869 MS.gene043184:intron 40.0%
! GTTGAACTAGGTTTTGCAGA+AGG + chr4.2:71076315-71076334 None:intergenic 40.0%
!! GAAAGCACTTCAGCCTATTT+GGG + chr4.2:71075227-71075246 None:intergenic 40.0%
!! TGAAAGCACTTCAGCCTATT+TGG + chr4.2:71075228-71075247 None:intergenic 40.0%
ACCCAATTACTTGTCCATGG+TGG + chr4.2:71076026-71076045 None:intergenic 45.0%
CCAACCCAATTACTTGTCCA+TGG + chr4.2:71076029-71076048 None:intergenic 45.0%
CCATGGACAAGTAATTGGGT+TGG - chr4.2:71076026-71076045 MS.gene043184:intron 45.0%
GGAGATGTTCAAGCACATCT+TGG + chr4.2:71075539-71075558 None:intergenic 45.0%
TGGTGTGTGAATATGGATGG+AGG - chr4.2:71074579-71074598 MS.gene043184:CDS 45.0%
! AGACTAATTGATGGCACAGG+AGG - chr4.2:71075853-71075872 MS.gene043184:intron 45.0%
!!! TTTCTTTAATTTATTTTTTT+TGG + chr4.2:71075348-71075367 None:intergenic 5.0%
AGGTACTCTTGTGCATCAGC+AGG + chr4.2:71075561-71075580 None:intergenic 50.0%
GGTACTCTTGTGCATCAGCA+GGG + chr4.2:71075560-71075579 None:intergenic 50.0%
! CTAATTGATGGCACAGGAGG+AGG - chr4.2:71075856-71075875 MS.gene043184:intron 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 71074527 71076445 71074527 ID=MS.gene043184
chr4.2 mRNA 71074527 71076445 71074527 ID=MS.gene043184.t1;Parent=MS.gene043184
chr4.2 exon 71076257 71076445 71076257 ID=MS.gene043184.t1.exon1;Parent=MS.gene043184.t1
chr4.2 CDS 71076257 71076445 71076257 ID=cds.MS.gene043184.t1;Parent=MS.gene043184.t1
chr4.2 exon 71075693 71075739 71075693 ID=MS.gene043184.t1.exon2;Parent=MS.gene043184.t1
chr4.2 CDS 71075693 71075739 71075693 ID=cds.MS.gene043184.t1;Parent=MS.gene043184.t1
chr4.2 exon 71075356 71075517 71075356 ID=MS.gene043184.t1.exon3;Parent=MS.gene043184.t1
chr4.2 CDS 71075356 71075517 71075356 ID=cds.MS.gene043184.t1;Parent=MS.gene043184.t1
chr4.2 exon 71074937 71075100 71074937 ID=MS.gene043184.t1.exon4;Parent=MS.gene043184.t1
chr4.2 CDS 71074937 71075100 71074937 ID=cds.MS.gene043184.t1;Parent=MS.gene043184.t1
chr4.2 exon 71074527 71074609 71074527 ID=MS.gene043184.t1.exon5;Parent=MS.gene043184.t1
chr4.2 CDS 71074527 71074609 71074527 ID=cds.MS.gene043184.t1;Parent=MS.gene043184.t1
Gene Sequence

>MS.gene043184

ATGTTGGAGATTGAGAAAGGTAGTGAAAATATGAGGCAAAAGTTGGATTTTTTGGTGTGTGAATATGGATGGAGGATAAGGAGATTAATTGAGAATGCAGATGAGATAAAAATGGCTGCTCAAGTTCAAGCTGAAGCTTTTCATGATCCTGTAGCTCTTTTCAATGATTTGTTCTTTCAATTCTTTAAGGTCTGCTTCTCTCTTTTTTATTAGTGTTTATATTTCATCTTCATTTTTATGTACTTTTCATATGCTATTTTATTTTTTAAGAAATTGTTTAAATAGTTACAAGATTTTGAAATATGGTGGAACTTGAGTGTAAACACTGTTTGATCCAAACTCTCTTGATGGTGAAATTGCTTCTCAAATTGTAGGATGGTAAATTTAGTTATTTTCCCAAATTGTGCAGTGGTTAGAATTTCTCCTTTAAGGACAATAAGTAGAGAATCTGGAGTTCAGACTCCGATTTTCACATATATAATACAATATCCTATTAACTGAACTATTCAGCGAGACAAATTTAGTCTCTTTAGATATAAGAAATTTTAAAATAATTTTTAAAAATTGAAAATGATTAATCTAATAATACTTTTAGATTAGTCAAATTAGTCCTTTAAAATAATAAATTTTGACCATTAAGCACCTACCACATTTTATTTGCCTTTAAATGGTTGTTTAATGTTTTATTCATTCTTGACCCAAATAGGCTGAAGTGCTTTCAGGACTGCTTTACAAGCTTAAATACTCTGATAGGTACATTTGTTGTTATTTCTAAACAAGTTTATGTAGATTATCATTTATCAATATGAAATTGGTGACCAAAAAAAATAAATTAAAGAAAAAAACTCATGATAAACCTGAAGCATGAGATAATAAATTGATCTTGTGTAAAACATTAGCAACTAATGTATATTATGCTATTATATAGGTATGCTTGTTTGGTGGCTGAGAATGATCAAGATTCATCAAAGGAACTTGTAGGTGTTATAGATGTTACTGTAATGAGAGACCAAGATGTGCTTGAACATCTCCCTGCTGATGCACAAGAGTACCTTTACATTTCAGGAATAGCTGTATCCAATGCTTTCAGGTGATTAAAAGATTTAATTACTATTACATCTCTGAAATATTCAAGGATTTTTAAATAGGTCATTGAAATAAAATATTTGTAACTTAGTCCCTGAACACACAAAAAGAAAACTGTTATATAGCGACTGATATTAGATATCAAAATATTAAATCGATCGCTAACATTAGCAACTAGTGGTTTAACGACATTTTACACATTGATATTTTTCATGTGATGTGTGAATCTATACGTTAATGAGACTAATTGATGGCACAGGAGGAGGAAAATAGCAACTGTTATGTTGAAAGCATGTGACATAATATCCAATTTGTGGGGTAATGAGTTTCTTGTCCTTAGAGCCTATGAAGAAGATTTGGGTGCTCGAACATTGTACACAAATGCTGGCTACCAACTTGTTTCTAAAGATCCACCATGGACAAGTAATTGGGTTGGAAGAAAATGTCGTGTTCTTATGGTCAAAAGAATTAGTTTATTGCCTAATTAAGTAGAATATTAATTCAAAATTCAGACAAAATATTAGAAATGGAAAATGTATTCTATGTACATATCATATGTCAGCATATTTAGTTAATTATTTCTCATTGATTACACACAAAACAAGTTTATCCAATACTATTTCAGTGTCATCAATCGTGGATAGCGAAAAAAAGCATGTTGTTTAAATCGATGAATATGATACCTTGCAATCGTCTTTTCCTTCTGCAAAACCTAGTTCAACATCTGCTTTGATTGATCTACTGTATAAGGTGACACGAGAGAAGTGCAATCTGAGATCGATAGAGAAGAACAATCAAAGAGAGAGCTCAAGGGAGTGAGAGAGAACCGTTGA
Protein sequence

>MS.gene043184.t1

MLEIEKGSENMRQKLDFLVCEYGWRIRRLIENADEIKMAAQVQAEAFHDPVALFNDLFFQFFKAEVLSGLLYKLKYSDRYACLVAENDQDSSKELVGVIDVTVMRDQDVLEHLPADAQEYLYISGIAVSNAFRRRKIATVMLKACDIISNLWGNEFLVLRAYEEDLGARTLYTNAGYQLVSKDPPWTSDTREVQSEIDREEQSKRELKGVRENR