AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057478


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057478.t1 MTR_7g013160 98.805 251 3 0 1 251 5 255 0.0 513
MS.gene057478.t1 MTR_7g013160 98.805 251 3 0 1 251 1 251 0.0 513
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057478.t1 AT5G39250 66.142 254 81 3 1 251 1 252 3.40e-122 348
MS.gene057478.t1 AT5G39250 66.142 254 81 3 1 251 1 252 3.40e-122 348

Find 56 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTACGTTGTTGGCGTTTA+TGG 0.113675 7.2:-84122037 None:intergenic
GAAGATCTTATGGATGTATT+TGG 0.156608 7.2:+84122488 MS.gene057478:CDS
TGCCCGGATGCCGGGCAAAA+AGG 0.191357 7.2:-84122432 None:intergenic
GAGAATTTCCTTTGATGATT+TGG 0.254747 7.2:+84122073 MS.gene057478:CDS
TAGGTTTCAGTAGGAGGATT+AGG 0.276690 7.2:-84121993 None:intergenic
TAGCTAAAGACGATTTCTTT+TGG 0.278733 7.2:+84121928 MS.gene057478:CDS
CTGTGATGTGGCAAATTCTA+AGG 0.293619 7.2:+84122526 MS.gene057478:CDS
AGAGGGAAGTGAAGATCTTA+TGG 0.307374 7.2:+84122478 MS.gene057478:CDS
ATGGATATCTTTGCTATTCA+TGG 0.339435 7.2:+84122454 MS.gene057478:CDS
CTCTTCTCGGAAGCGGTGTC+TGG 0.348746 7.2:+84122131 MS.gene057478:CDS
GCAGATTGATGGCCATCTAT+TGG 0.358781 7.2:-84121964 None:intergenic
TCTGGCTCTGTCCTGCAATC+AGG 0.360560 7.2:+84122149 MS.gene057478:CDS
GGAAGAAGTCTTGTGGCTAT+TGG 0.366589 7.2:+84122547 MS.gene057478:CDS
CCACATCACAGAAATCCATT+TGG 0.372208 7.2:-84122514 None:intergenic
TGTTGATCTTGCTTCTTGTA+TGG 0.375347 7.2:+84121881 MS.gene057478:CDS
AAGATCTTATGGATGTATTT+GGG 0.377784 7.2:+84122489 MS.gene057478:CDS
GACTTCTGAAACCTGATTGC+AGG 0.382994 7.2:-84122160 None:intergenic
GGTTTCAGAAGTCCAGCTTC+TGG 0.386300 7.2:+84122170 MS.gene057478:CDS
TGGGCGGAAGGATACAAATA+AGG 0.418384 7.2:+84122313 MS.gene057478:CDS
TTAGGTCGCTTGCAGATTGA+TGG 0.425972 7.2:-84121975 None:intergenic
GGCTATTGGACATGCTAGAT+TGG 0.433276 7.2:+84122561 MS.gene057478:CDS
AGATATCCATGCCCGGATGC+CGG 0.435632 7.2:-84122441 None:intergenic
GGAGAAGAGTTCTACGTTGT+TGG 0.464005 7.2:-84122046 None:intergenic
TGAAGATATACTTCTCTTCT+CGG 0.464021 7.2:+84122118 MS.gene057478:CDS
AAATCATCAAAGGAAATTCT+CGG 0.464319 7.2:-84122071 None:intergenic
ATCTTTGCTATTCATGGAAG+AGG 0.467936 7.2:+84122460 MS.gene057478:CDS
GATCAACACCCTCCAGTAAA+GGG 0.470826 7.2:-84121866 None:intergenic
GATATCCATGCCCGGATGCC+GGG 0.472969 7.2:-84122440 None:intergenic
GGATGTATTTGGGATCCAAA+TGG 0.475681 7.2:+84122499 MS.gene057478:CDS
ATAGTAAACCTAGGTTCAAC+CGG 0.490159 7.2:-84122248 None:intergenic
TTGTAGTAGGTTTCAGTAGG+AGG 0.490448 7.2:-84121999 None:intergenic
AGATCAACACCCTCCAGTAA+AGG 0.495696 7.2:-84121867 None:intergenic
CTCTGTGATGGTTGGGCGGA+AGG 0.498808 7.2:+84122301 MS.gene057478:CDS
GTTAGTGTCTCTGTGATGGT+TGG 0.508227 7.2:+84122293 MS.gene057478:CDS
CCGTTCAATATAATCGAAGA+TGG 0.510171 7.2:-84122357 None:intergenic
ACGTTGTTGGCGTTTATGGA+AGG 0.533624 7.2:-84122033 None:intergenic
TTAGTGTCTCTGTGATGGTT+GGG 0.542497 7.2:+84122294 MS.gene057478:CDS
AATGTATGTGTGCCAATAGA+TGG 0.548994 7.2:+84121952 MS.gene057478:CDS
TATACTTCTCTTCTCGGAAG+CGG 0.561703 7.2:+84122124 MS.gene057478:CDS
AAGTCACAAACTCCAGAAGC+TGG 0.569927 7.2:-84122182 None:intergenic
GATTACCTAGACATATCCCC+TGG 0.593211 7.2:+84122404 MS.gene057478:CDS
CATCAAAGGAAATTCTCGGA+GGG 0.597906 7.2:-84122067 None:intergenic
GGTAGCCAGGGGATATGTCT+AGG 0.598963 7.2:-84122409 None:intergenic
TCTTTGCTATTCATGGAAGA+GGG 0.599764 7.2:+84122461 MS.gene057478:CDS
CCATCTTCGATTATATTGAA+CGG 0.603506 7.2:+84122357 MS.gene057478:CDS
AACTTGTAGTAGGTTTCAGT+AGG 0.606356 7.2:-84122002 None:intergenic
ACGGTCATCATATAGAGCGT+TGG 0.609824 7.2:+84122376 MS.gene057478:CDS
GAATGTTAGTGTCTCTGTGA+TGG 0.628771 7.2:+84122289 MS.gene057478:CDS
ATAGCAAAGATATCCATGCC+CGG 0.629559 7.2:-84122448 None:intergenic
CCAAATGGATTTCTGTGATG+TGG 0.629679 7.2:+84122514 MS.gene057478:CDS
TCTTGTATTCAGAACTCTCG+AGG 0.633242 7.2:-84122217 None:intergenic
ATTCTAAGGAAGAAGTCTTG+TGG 0.635806 7.2:+84122540 MS.gene057478:CDS
GTGTCTCTGTGATGGTTGGG+CGG 0.653712 7.2:+84122297 MS.gene057478:CDS
TCTGAAGGGATAGTAAACCT+AGG 0.660259 7.2:-84122257 None:intergenic
GTATGGCTGTCTGTAAGCAG+TGG 0.670737 7.2:+84121898 MS.gene057478:CDS
TCATCAAAGGAAATTCTCGG+AGG 0.698476 7.2:-84122068 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATCATCAAAGGAAATTCT+CGG - chr7.2:84122074-84122093 None:intergenic 25.0%
! AAGATCTTATGGATGTATTT+GGG + chr7.2:84122489-84122508 MS.gene057478:CDS 25.0%
!!! GGTTTTATATAACTTGTAGT+AGG - chr7.2:84122015-84122034 None:intergenic 25.0%
CCATCTTCGATTATATTGAA+CGG + chr7.2:84122357-84122376 MS.gene057478:CDS 30.0%
GAAAAACTCCAAATCATCAA+AGG - chr7.2:84122084-84122103 None:intergenic 30.0%
GAAGATCTTATGGATGTATT+TGG + chr7.2:84122488-84122507 MS.gene057478:CDS 30.0%
TGAAGATATACTTCTCTTCT+CGG + chr7.2:84122118-84122137 MS.gene057478:CDS 30.0%
! ACATTCTGATTTTGTTCTGA+AGG - chr7.2:84122275-84122294 None:intergenic 30.0%
! GAGAATTTCCTTTGATGATT+TGG + chr7.2:84122073-84122092 MS.gene057478:CDS 30.0%
! GGAGTTTTTCATTGACATTT+GGG + chr7.2:84122094-84122113 MS.gene057478:CDS 30.0%
! TAGCTAAAGACGATTTCTTT+TGG + chr7.2:84121928-84121947 MS.gene057478:CDS 30.0%
! TGAATACAAGATGACTTTTC+CGG + chr7.2:84122229-84122248 MS.gene057478:CDS 30.0%
! TGGAGTTTTTCATTGACATT+TGG + chr7.2:84122093-84122112 MS.gene057478:CDS 30.0%
!! ATGGATATCTTTGCTATTCA+TGG + chr7.2:84122454-84122473 MS.gene057478:CDS 30.0%
!! CATTCTGATTTTGTTCTGAA+GGG - chr7.2:84122274-84122293 None:intergenic 30.0%
AACTTGTAGTAGGTTTCAGT+AGG - chr7.2:84122005-84122024 None:intergenic 35.0%
AATGTATGTGTGCCAATAGA+TGG + chr7.2:84121952-84121971 MS.gene057478:CDS 35.0%
ATAGTAAACCTAGGTTCAAC+CGG - chr7.2:84122251-84122270 None:intergenic 35.0%
CCGTTCAATATAATCGAAGA+TGG - chr7.2:84122360-84122379 None:intergenic 35.0%
TGTTGATCTTGCTTCTTGTA+TGG + chr7.2:84121881-84121900 MS.gene057478:CDS 35.0%
! ATTCTAAGGAAGAAGTCTTG+TGG + chr7.2:84122540-84122559 MS.gene057478:CDS 35.0%
!! ATCTTTGCTATTCATGGAAG+AGG + chr7.2:84122460-84122479 MS.gene057478:CDS 35.0%
!! GGAATCTGAAGAAGTTTTGA+AGG + chr7.2:84121836-84121855 MS.gene057478:CDS 35.0%
!! TCTTTGCTATTCATGGAAGA+GGG + chr7.2:84122461-84122480 MS.gene057478:CDS 35.0%
AGAGGGAAGTGAAGATCTTA+TGG + chr7.2:84122478-84122497 MS.gene057478:CDS 40.0%
ATAGCAAAGATATCCATGCC+CGG - chr7.2:84122451-84122470 None:intergenic 40.0%
CATCAAAGGAAATTCTCGGA+GGG - chr7.2:84122070-84122089 None:intergenic 40.0%
CCACATCACAGAAATCCATT+TGG - chr7.2:84122517-84122536 None:intergenic 40.0%
CTGTGATGTGGCAAATTCTA+AGG + chr7.2:84122526-84122545 MS.gene057478:CDS 40.0%
GAATGTTAGTGTCTCTGTGA+TGG + chr7.2:84122289-84122308 MS.gene057478:CDS 40.0%
TAGGTTTCAGTAGGAGGATT+AGG - chr7.2:84121996-84122015 None:intergenic 40.0%
TATACTTCTCTTCTCGGAAG+CGG + chr7.2:84122124-84122143 MS.gene057478:CDS 40.0%
TCATCAAAGGAAATTCTCGG+AGG - chr7.2:84122071-84122090 None:intergenic 40.0%
TCTGAAGGGATAGTAAACCT+AGG - chr7.2:84122260-84122279 None:intergenic 40.0%
TCTTGTATTCAGAACTCTCG+AGG - chr7.2:84122220-84122239 None:intergenic 40.0%
TTAGTGTCTCTGTGATGGTT+GGG + chr7.2:84122294-84122313 MS.gene057478:CDS 40.0%
TTCTACGTTGTTGGCGTTTA+TGG - chr7.2:84122040-84122059 None:intergenic 40.0%
TTGTAGTAGGTTTCAGTAGG+AGG - chr7.2:84122002-84122021 None:intergenic 40.0%
! CCAAATGGATTTCTGTGATG+TGG + chr7.2:84122514-84122533 MS.gene057478:CDS 40.0%
! GGATGTATTTGGGATCCAAA+TGG + chr7.2:84122499-84122518 MS.gene057478:CDS 40.0%
AAGTCACAAACTCCAGAAGC+TGG - chr7.2:84122185-84122204 None:intergenic 45.0%
ACGGTCATCATATAGAGCGT+TGG + chr7.2:84122376-84122395 MS.gene057478:CDS 45.0%
ACGTTGTTGGCGTTTATGGA+AGG - chr7.2:84122036-84122055 None:intergenic 45.0%
AGATCAACACCCTCCAGTAA+AGG - chr7.2:84121870-84121889 None:intergenic 45.0%
GATCAACACCCTCCAGTAAA+GGG - chr7.2:84121869-84121888 None:intergenic 45.0%
GATTACCTAGACATATCCCC+TGG + chr7.2:84122404-84122423 MS.gene057478:CDS 45.0%
GGAGAAGAGTTCTACGTTGT+TGG - chr7.2:84122049-84122068 None:intergenic 45.0%
GGCTATTGGACATGCTAGAT+TGG + chr7.2:84122561-84122580 MS.gene057478:CDS 45.0%
GTTAGTGTCTCTGTGATGGT+TGG + chr7.2:84122293-84122312 MS.gene057478:CDS 45.0%
TGGGCGGAAGGATACAAATA+AGG + chr7.2:84122313-84122332 MS.gene057478:CDS 45.0%
TTAGGTCGCTTGCAGATTGA+TGG - chr7.2:84121978-84121997 None:intergenic 45.0%
! GCAGATTGATGGCCATCTAT+TGG - chr7.2:84121967-84121986 None:intergenic 45.0%
! GGAAGAAGTCTTGTGGCTAT+TGG + chr7.2:84122547-84122566 MS.gene057478:CDS 45.0%
! TGACTTTTCCGGTTGAACCT+AGG + chr7.2:84122240-84122259 MS.gene057478:CDS 45.0%
!! GAAGGCTGTTTTCCCTTTAC+TGG + chr7.2:84121854-84121873 MS.gene057478:CDS 45.0%
!! GACTTCTGAAACCTGATTGC+AGG - chr7.2:84122163-84122182 None:intergenic 45.0%
!! GCTGTTTTCCCTTTACTGGA+GGG + chr7.2:84121858-84121877 MS.gene057478:CDS 45.0%
GGTTTCAGAAGTCCAGCTTC+TGG + chr7.2:84122170-84122189 MS.gene057478:CDS 50.0%
GTATGGCTGTCTGTAAGCAG+TGG + chr7.2:84121898-84121917 MS.gene057478:CDS 50.0%
!! GGCTGTTTTCCCTTTACTGG+AGG + chr7.2:84121857-84121876 MS.gene057478:CDS 50.0%
AGATATCCATGCCCGGATGC+CGG - chr7.2:84122444-84122463 None:intergenic 55.0%
GGTAGCCAGGGGATATGTCT+AGG - chr7.2:84122412-84122431 None:intergenic 55.0%
GTGTCTCTGTGATGGTTGGG+CGG + chr7.2:84122297-84122316 MS.gene057478:CDS 55.0%
!! TCTGGCTCTGTCCTGCAATC+AGG + chr7.2:84122149-84122168 MS.gene057478:CDS 55.0%
CGGGCAAAAAGGGGTAGCCA+GGG - chr7.2:84122424-84122443 None:intergenic 60.0%
CTCTGTGATGGTTGGGCGGA+AGG + chr7.2:84122301-84122320 MS.gene057478:CDS 60.0%
CTCTTCTCGGAAGCGGTGTC+TGG + chr7.2:84122131-84122150 MS.gene057478:CDS 60.0%
GATATCCATGCCCGGATGCC+GGG - chr7.2:84122443-84122462 None:intergenic 60.0%
GGGCAAAAAGGGGTAGCCAG+GGG - chr7.2:84122423-84122442 None:intergenic 60.0%
! ACCCCTTTTTGCCCGGCATC+CGG + chr7.2:84122429-84122448 MS.gene057478:CDS 60.0%
! CCTGGCTACCCCTTTTTGCC+CGG + chr7.2:84122422-84122441 MS.gene057478:CDS 60.0%
CCCGGATGCCGGGCAAAAAG+GGG - chr7.2:84122433-84122452 None:intergenic 65.0%
CCGGGCAAAAAGGGGTAGCC+AGG - chr7.2:84122425-84122444 None:intergenic 65.0%
GCCCGGATGCCGGGCAAAAA+GGG - chr7.2:84122434-84122453 None:intergenic 65.0%
TGCCCGGATGCCGGGCAAAA+AGG - chr7.2:84122435-84122454 None:intergenic 65.0%
! CCCCTTTTTGCCCGGCATCC+GGG + chr7.2:84122430-84122449 MS.gene057478:CDS 65.0%
! TTTTGCCCGGCATCCGGGCA+TGG + chr7.2:84122435-84122454 MS.gene057478:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 84121834 84122589 84121834 ID=MS.gene057478
chr7.2 mRNA 84121834 84122589 84121834 ID=MS.gene057478.t1;Parent=MS.gene057478
chr7.2 exon 84121834 84122589 84121834 ID=MS.gene057478.t1.exon1;Parent=MS.gene057478.t1
chr7.2 CDS 84121834 84122589 84121834 ID=cds.MS.gene057478.t1;Parent=MS.gene057478.t1
Gene Sequence

>MS.gene057478

ATGGAATCTGAAGAAGTTTTGAAGGCTGTTTTCCCTTTACTGGAGGGTGTTGATCTTGCTTCTTGTATGGCTGTCTGTAAGCAGTGGAATGATATAGCTAAAGACGATTTCTTTTGGAAATGTATGTGTGCCAATAGATGGCCATCAATCTGCAAGCGACCTAATCCTCCTACTGAAACCTACTACAAGTTATATAAAACCTTCCATAAACGCCAACAACGTAGAACTCTTCTCCCTCCGAGAATTTCCTTTGATGATTTGGAGTTTTTCATTGACATTTGGGCTGAAGATATACTTCTCTTCTCGGAAGCGGTGTCTGGCTCTGTCCTGCAATCAGGTTTCAGAAGTCCAGCTTCTGGAGTTTGTGACTTGCTCAAATATCACCTCGAGAGTTCTGAATACAAGATGACTTTTCCGGTTGAACCTAGGTTTACTATCCCTTCAGAACAAAATCAGAATGTTAGTGTCTCTGTGATGGTTGGGCGGAAGGATACAAATAAGGTTGCATGCATCATAAACAAGTCCATCTTCGATTATATTGAACGGTCATCATATAGAGCGTTGGCATATGATTACCTAGACATATCCCCTGGCTACCCCTTTTTGCCCGGCATCCGGGCATGGATATCTTTGCTATTCATGGAAGAGGGAAGTGAAGATCTTATGGATGTATTTGGGATCCAAATGGATTTCTGTGATGTGGCAAATTCTAAGGAAGAAGTCTTGTGGCTATTGGACATGCTAGATTGGAAGTGA

Protein sequence

>MS.gene057478.t1

MESEEVLKAVFPLLEGVDLASCMAVCKQWNDIAKDDFFWKCMCANRWPSICKRPNPPTETYYKLYKTFHKRQQRRTLLPPRISFDDLEFFIDIWAEDILLFSEAVSGSVLQSGFRSPASGVCDLLKYHLESSEYKMTFPVEPRFTIPSEQNQNVSVSVMVGRKDTNKVACIINKSIFDYIERSSYRALAYDYLDISPGYPFLPGIRAWISLLFMEEGSEDLMDVFGIQMDFCDVANSKEEVLWLLDMLDWK