AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23226

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23226.t1 MTR_7g050670 90.730 356 33 0 1 356 1 356 0.0 672
MS.gene23226.t1 MTR_4g088845 69.492 354 105 1 1 354 1 351 1.12e-176 499
MS.gene23226.t1 MTR_7g076570 69.577 355 101 2 1 355 29 376 5.90e-173 491
MS.gene23226.t1 MTR_7g076760 66.947 357 116 1 1 355 1 357 1.77e-171 486
MS.gene23226.t1 MTR_0049s0110 24.638 345 227 13 24 346 13 346 3.25e-12 67.8
MS.gene23226.t1 MTR_1g021820 23.656 279 174 8 5 274 16 264 1.17e-11 65.9
MS.gene23226.t1 MTR_0049s0110 23.986 296 202 10 24 306 13 298 8.80e-11 62.8
MS.gene23226.t1 MTR_0049s0110 23.986 296 202 10 24 306 13 298 9.18e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23226.t1 AT1G61330 30.383 339 231 4 24 358 15 352 8.25e-45 160
MS.gene23226.t1 AT1G61320 26.611 357 256 6 7 358 9 364 3.88e-37 139

Find 44 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCTCTTTCTTCAAGTAAT+TGG 0.125921 7.2:-52459710 None:intergenic
AATATCAGAGGAAGCAATTT+TGG 0.132649 7.2:-52459733 None:intergenic
TAGATATAGCCAACAAAATT+TGG 0.214567 7.2:+52459896 MS.gene23226:CDS
CGAGAAGCACAATATTGTTT+TGG 0.280542 7.2:+52460822 MS.gene23226:CDS
TTCTCTTTCTTCAAGTAATT+GGG 0.291904 7.2:-52459709 None:intergenic
TTTCTTCAAGTAATTGGGTT+TGG 0.337985 7.2:-52459704 None:intergenic
CCTTGAGAAATTCGAACAAT+TGG 0.344457 7.2:-52460428 None:intergenic
CACTTGGAACATCTGGTAAC+TGG 0.354434 7.2:-52460154 None:intergenic
TGCAAACCACTTGGAACATC+TGG 0.369208 7.2:-52460161 None:intergenic
CAGATACCTATTGATCCTGT+TGG 0.426274 7.2:+52459975 MS.gene23226:CDS
ATGAACAATTTCACCAAAGA+TGG 0.432770 7.2:-52460927 None:intergenic
GTTACAATTGCATGTTTGAT+TGG 0.434761 7.2:-52459795 None:intergenic
AGCTTCAATTGTTGATGGAT+GGG 0.435576 7.2:+52460856 MS.gene23226:CDS
TCGATCCCAACAGGATCAAT+AGG 0.435893 7.2:-52459981 None:intergenic
AATCGATTGTTGTGAGGACT+TGG 0.438503 7.2:+52460349 MS.gene23226:CDS
CATTTATTCAATTCGCATGA+AGG 0.441661 7.2:+52459933 MS.gene23226:CDS
AGATACCTATTGATCCTGTT+GGG 0.442365 7.2:+52459976 MS.gene23226:CDS
AGCAAAACTTCGATCCCAAC+AGG 0.444056 7.2:-52459990 None:intergenic
AGAAATGTCTAGTATGTTGA+TGG 0.446305 7.2:+52460226 MS.gene23226:CDS
AGAAACATAGTTATATCGTA+TGG 0.451009 7.2:-52460894 None:intergenic
CCGCAACAACCGTGTCTCCT+AGG 0.463343 7.2:+52459817 MS.gene23226:CDS
CCAATTGTTCGAATTTCTCA+AGG 0.467861 7.2:+52460428 MS.gene23226:CDS
GCTGACATGTGAGAAATCTT+TGG 0.470936 7.2:-52460528 None:intergenic
GAGGGAGCTTCAATTGTTGA+TGG 0.475203 7.2:+52460851 MS.gene23226:CDS
GAGCTTCAATTGTTGATGGA+TGG 0.475394 7.2:+52460855 MS.gene23226:CDS
CTCAATAAGTTGAGGTGTAG+TGG 0.510982 7.2:-52460558 None:intergenic
CACTACACCTCAACTTATTG+AGG 0.526106 7.2:+52460559 MS.gene23226:CDS
GTTGCAAATATGCACTAAGA+AGG 0.527767 7.2:+52460022 MS.gene23226:CDS
GCTTCAATTGTTGATGGATG+GGG 0.535016 7.2:+52460857 MS.gene23226:CDS
TGGCTGTAAGGATTCGTGAT+GGG 0.538732 7.2:+52460793 MS.gene23226:CDS
CTCCTAGGTACAAAAGATCA+TGG 0.540463 7.2:+52459832 MS.gene23226:CDS
TTCCTCTGATATTCTTTCAG+AGG 0.543802 7.2:+52459743 MS.gene23226:CDS
TAGACATTTCTTCAGTGATG+TGG 0.554004 7.2:-52460214 None:intergenic
GGCTGTAAGGATTCGTGATG+GGG 0.558929 7.2:+52460794 MS.gene23226:CDS
CCTAGGAGACACGGTTGTTG+CGG 0.568615 7.2:-52459817 None:intergenic
CAATTGTTCGAATTTCTCAA+GGG 0.575572 7.2:+52460429 MS.gene23226:CDS
GTGGCTGTAAGGATTCGTGA+TGG 0.602284 7.2:+52460792 MS.gene23226:CDS
TTTGAGAATCGATTGTTGTG+AGG 0.602856 7.2:+52460343 MS.gene23226:CDS
ATGCACTAAGAAGGATCTAG+AGG 0.604734 7.2:+52460031 MS.gene23226:CDS
ATTCAATTGTGAAACCAGGT+TGG 0.613456 7.2:-52460073 None:intergenic
ATCCTCTGAAAGAATATCAG+AGG 0.620792 7.2:-52459745 None:intergenic
CAGTTACCAGATGTTCCAAG+TGG 0.629758 7.2:+52460155 MS.gene23226:CDS
GTAGATTCAATTGTGAAACC+AGG 0.639369 7.2:-52460077 None:intergenic
ATATATACCTCAATAAGTTG+AGG 0.643108 7.2:-52460566 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATTTATGCATATTAATAA+AGG - chr7.2:52460750-52460769 None:intergenic 10.0%
!!! AAATTTTCCATGATAAAAAA+TGG - chr7.2:52460408-52460427 None:intergenic 15.0%
!! ATAATAAATGCGTATAGATT+TGG - chr7.2:52460706-52460725 None:intergenic 20.0%
!! ATAGATATATTGCATGATAT+AGG - chr7.2:52460668-52460687 None:intergenic 20.0%
!! CAAGTTAAAAACACTAAAAT+TGG + chr7.2:52460118-52460137 MS.gene23226:CDS 20.0%
!!! AATATTGTTTTGGAAATTTG+AGG + chr7.2:52460832-52460851 MS.gene23226:CDS 20.0%
!!! ATATTGTTTTGGAAATTTGA+GGG + chr7.2:52460833-52460852 MS.gene23226:CDS 20.0%
!!! TATTAAACCTTGTCATTTTA+GGG + chr7.2:52460768-52460787 MS.gene23226:intron 20.0%
!!! TTATTAAACCTTGTCATTTT+AGG + chr7.2:52460767-52460786 MS.gene23226:intron 20.0%
! AGAAACATAGTTATATCGTA+TGG - chr7.2:52460897-52460916 None:intergenic 25.0%
! AGTCTCTATCAAACAAAAAT+CGG - chr7.2:52459869-52459888 None:intergenic 25.0%
! ATATATACCTCAATAAGTTG+AGG - chr7.2:52460569-52460588 None:intergenic 25.0%
! TAAAAAATGGAAAGAAGAGT+TGG - chr7.2:52460395-52460414 None:intergenic 25.0%
! TAGATATAGCCAACAAAATT+TGG + chr7.2:52459896-52459915 MS.gene23226:CDS 25.0%
! TTCTCTTTCTTCAAGTAATT+GGG - chr7.2:52459712-52459731 None:intergenic 25.0%
!!! CTTCTTTCCATTTTTTATCA+TGG + chr7.2:52460398-52460417 MS.gene23226:CDS 25.0%
AGAAATGTCTAGTATGTTGA+TGG + chr7.2:52460226-52460245 MS.gene23226:CDS 30.0%
ATGAACAATTTCACCAAAGA+TGG - chr7.2:52460930-52460949 None:intergenic 30.0%
CAATTGTTCGAATTTCTCAA+GGG + chr7.2:52460429-52460448 MS.gene23226:CDS 30.0%
CATTTATTCAATTCGCATGA+AGG + chr7.2:52459933-52459952 MS.gene23226:CDS 30.0%
GTTACAATTGCATGTTTGAT+TGG - chr7.2:52459798-52459817 None:intergenic 30.0%
GTTCTCTTTCTTCAAGTAAT+TGG - chr7.2:52459713-52459732 None:intergenic 30.0%
TCTCAAAAATTGTCCATCTT+TGG + chr7.2:52460914-52460933 MS.gene23226:CDS 30.0%
TTTCTTCAAGTAATTGGGTT+TGG - chr7.2:52459707-52459726 None:intergenic 30.0%
! AATATCAGAGGAAGCAATTT+TGG - chr7.2:52459736-52459755 None:intergenic 30.0%
! ATATCAGAGGAAGCAATTTT+GGG - chr7.2:52459735-52459754 None:intergenic 30.0%
! GATTGCATGTATTCTTTTGA+TGG - chr7.2:52460488-52460507 None:intergenic 30.0%
!!! TTGGGTTTGGTTTTCAAAAT+TGG - chr7.2:52459694-52459713 None:intergenic 30.0%
AGATACCTATTGATCCTGTT+GGG + chr7.2:52459976-52459995 MS.gene23226:CDS 35.0%
ATTCAATTGTGAAACCAGGT+TGG - chr7.2:52460076-52460095 None:intergenic 35.0%
CCAATTGTTCGAATTTCTCA+AGG + chr7.2:52460428-52460447 MS.gene23226:CDS 35.0%
CCTTGAGAAATTCGAACAAT+TGG - chr7.2:52460431-52460450 None:intergenic 35.0%
GTAGATTCAATTGTGAAACC+AGG - chr7.2:52460080-52460099 None:intergenic 35.0%
GTTGCAAATATGCACTAAGA+AGG + chr7.2:52460022-52460041 MS.gene23226:CDS 35.0%
TAGACATTTCTTCAGTGATG+TGG - chr7.2:52460217-52460236 None:intergenic 35.0%
TGCAAAAATTGCAAACCACT+TGG - chr7.2:52460173-52460192 None:intergenic 35.0%
TTCCTCTGATATTCTTTCAG+AGG + chr7.2:52459743-52459762 MS.gene23226:CDS 35.0%
TTTGAGAATCGATTGTTGTG+AGG + chr7.2:52460343-52460362 MS.gene23226:CDS 35.0%
! AGCTTCAATTGTTGATGGAT+GGG + chr7.2:52460856-52460875 MS.gene23226:CDS 35.0%
! ATCCTCTGAAAGAATATCAG+AGG - chr7.2:52459748-52459767 None:intergenic 35.0%
! CTATTGCAGCCAAATTTTGT+TGG - chr7.2:52459908-52459927 None:intergenic 35.0%
! TCGAAGTTTTGCTTAAGAGA+TGG + chr7.2:52460000-52460019 MS.gene23226:CDS 35.0%
!! CGAGAAGCACAATATTGTTT+TGG + chr7.2:52460822-52460841 MS.gene23226:CDS 35.0%
AATCGATTGTTGTGAGGACT+TGG + chr7.2:52460349-52460368 MS.gene23226:CDS 40.0%
ATGCACTAAGAAGGATCTAG+AGG + chr7.2:52460031-52460050 MS.gene23226:CDS 40.0%
CACTACACCTCAACTTATTG+AGG + chr7.2:52460559-52460578 MS.gene23226:CDS 40.0%
CAGATACCTATTGATCCTGT+TGG + chr7.2:52459975-52459994 MS.gene23226:CDS 40.0%
CTCCTAGGTACAAAAGATCA+TGG + chr7.2:52459832-52459851 MS.gene23226:CDS 40.0%
GCTGACATGTGAGAAATCTT+TGG - chr7.2:52460531-52460550 None:intergenic 40.0%
! CACCATGATCTTTTGTACCT+AGG - chr7.2:52459837-52459856 None:intergenic 40.0%
! CTCAATAAGTTGAGGTGTAG+TGG - chr7.2:52460561-52460580 None:intergenic 40.0%
! GAGCTTCAATTGTTGATGGA+TGG + chr7.2:52460855-52460874 MS.gene23226:CDS 40.0%
! GCTTCAATTGTTGATGGATG+GGG + chr7.2:52460857-52460876 MS.gene23226:CDS 40.0%
! TCTTTTGTACCTAGGAGACA+CGG - chr7.2:52459829-52459848 None:intergenic 40.0%
!!! AACCTTGTCATTTTAGGGAG+TGG + chr7.2:52460773-52460792 MS.gene23226:intron 40.0%
AGCAAAACTTCGATCCCAAC+AGG - chr7.2:52459993-52460012 None:intergenic 45.0%
AGCCACTCCCTAAAATGACA+AGG - chr7.2:52460778-52460797 None:intergenic 45.0%
CACTTGGAACATCTGGTAAC+TGG - chr7.2:52460157-52460176 None:intergenic 45.0%
CAGTTACCAGATGTTCCAAG+TGG + chr7.2:52460155-52460174 MS.gene23226:CDS 45.0%
GAGGGAGCTTCAATTGTTGA+TGG + chr7.2:52460851-52460870 MS.gene23226:CDS 45.0%
TCGATCCCAACAGGATCAAT+AGG - chr7.2:52459984-52460003 None:intergenic 45.0%
TGCAAACCACTTGGAACATC+TGG - chr7.2:52460164-52460183 None:intergenic 45.0%
TGGCTGTAAGGATTCGTGAT+GGG + chr7.2:52460793-52460812 MS.gene23226:CDS 45.0%
! GAGCTGTCTTTTTACCAACC+TGG + chr7.2:52460059-52460078 MS.gene23226:CDS 45.0%
!! CATTTTAGGGAGTGGCTGTA+AGG + chr7.2:52460781-52460800 MS.gene23226:intron 45.0%
GGCTGTAAGGATTCGTGATG+GGG + chr7.2:52460794-52460813 MS.gene23226:CDS 50.0%
GTGGCTGTAAGGATTCGTGA+TGG + chr7.2:52460792-52460811 MS.gene23226:CDS 50.0%
CCTAGGAGACACGGTTGTTG+CGG - chr7.2:52459820-52459839 None:intergenic 55.0%
CCGCAACAACCGTGTCTCCT+AGG + chr7.2:52459817-52459836 MS.gene23226:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 52459687 52460980 52459687 ID=MS.gene23226
chr7.2 mRNA 52459687 52460980 52459687 ID=MS.gene23226.t1;Parent=MS.gene23226
chr7.2 exon 52459687 52460580 52459687 ID=MS.gene23226.t1.exon1;Parent=MS.gene23226.t1
chr7.2 CDS 52459687 52460580 52459687 ID=cds.MS.gene23226.t1;Parent=MS.gene23226.t1
chr7.2 exon 52460789 52460980 52460789 ID=MS.gene23226.t1.exon2;Parent=MS.gene23226.t1
chr7.2 CDS 52460789 52460980 52460789 ID=cds.MS.gene23226.t1;Parent=MS.gene23226.t1
Gene Sequence

>MS.gene23226

ATGGCCAATTTTGAAAACCAAACCCAATTACTTGAAGAAAGAGAACCCAAAATTGCTTCCTCTGATATTCTTTCAGAGGATATGATTCAAAACATTTTCACTTTCTTACCAATCAAACATGCAATTGTAACCGCAACAACCGTGTCTCCTAGGTACAAAAGATCATGGTGTCATAATCGCCGATTTTTGTTTGATAGAGACTTATGTTTTAGATATAGCCAACAAAATTTGGCTGCAATAGTTGATCATTTATTCAATTCGCATGAAGGTGACGAGATTAAAACGTTTCAGATACCTATTGATCCTGTTGGGATCGAAGTTTTGCTTAAGAGATGGTTGCAAATATGCACTAAGAAGGATCTAGAGGATCTTGAGCTGTCTTTTTACCAACCTGGTTTCACAATTGAATCTACTGTTTTTAACGCACTGCACAAGTTAAAAACACTAAAATTGGTTCAATGTGTGATCCAGTTACCAGATGTTCCAAGTGGTTTGCAATTTTTGCAAAAGCTAAAGCTAGCTAACATCCACATCACTGAAGAAATGTCTAGTATGTTGATGGAGCATTGTAAGATGCTTGAAATGATTGTTTTAATTAATTGCTCTACAATTAAGAAATTGAAATTAATTGCTAGACAAAATAAACATTTCAAAGATTTGAGAATCGATTGTTGTGAGGACTTGGAAGAGATTGAAATCGATTCACCAACTCTTCTTTCCATTTTTTATCATGGAAAATTTCCAATTGTTCGAATTTCTCAAGGGATGCAATTGTACGATGCTTTCTTTCGCTTTACACCATCAAAAGAATACATGCAATCTACTCAGCTAGAAGCTCTTGCCAAAGATTTCTCACATGTCAGCATTCTCACCACTACACCTCAACTTATTGAGGTATATATATAAACAAGCATATGCTTATTCTTATTTATTTACATTTCACTATTTACTATTTTATTTAATTACTTACAAACTACTCCTATATCATGCAATATATCTATATACATTTTTTTTGACCAAATCTATACGCATTTATTATTATTATTTGAATTTATTGATGCCTTTATTAATATGCATAAATTATTAAACCTTGTCATTTTAGGGAGTGGCTGTAAGGATTCGTGATGGGGTATTTCGAGAAGCACAATATTGTTTTGGAAATTTGAGGGAGCTTCAATTGTTGATGGATGGGGCAATATTTTGCAATCCATACGATATAACTATGTTTCTCAAAAATTGTCCATCTTTGGTGAAATTGTTCATTGATGTAAGTACTACTACTTCATTCTATTAG
Protein sequence

>MS.gene23226.t1

MANFENQTQLLEEREPKIASSDILSEDMIQNIFTFLPIKHAIVTATTVSPRYKRSWCHNRRFLFDRDLCFRYSQQNLAAIVDHLFNSHEGDEIKTFQIPIDPVGIEVLLKRWLQICTKKDLEDLELSFYQPGFTIESTVFNALHKLKTLKLVQCVIQLPDVPSGLQFLQKLKLANIHITEEMSSMLMEHCKMLEMIVLINCSTIKKLKLIARQNKHFKDLRIDCCEDLEEIEIDSPTLLSIFYHGKFPIVRISQGMQLYDAFFRFTPSKEYMQSTQLEALAKDFSHVSILTTTPQLIEGVAVRIRDGVFREAQYCFGNLRELQLLMDGAIFCNPYDITMFLKNCPSLVKLFIDVSTTTSFY