AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066191

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066191.t1 MTR_2g064370 94.505 182 7 1 1 179 1 182 1.59e-120 342
MS.gene066191.t1 MTR_8g046460 69.643 168 46 2 14 179 18 182 4.82e-82 244
MS.gene066191.t1 MTR_8g028425 60.000 105 42 0 75 179 92 196 2.92e-45 149
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066191.t1 AT1G79510 63.158 190 57 6 1 179 1 188 2.68e-73 222
MS.gene066191.t1 AT1G79510 63.158 190 57 6 1 179 1 188 2.68e-73 222
MS.gene066191.t1 AT1G16320 57.219 187 71 4 1 179 1 186 6.17e-68 208
MS.gene066191.t1 AT2G46220 56.481 108 47 0 72 179 81 188 1.25e-45 150

Find 43 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAAGTACAAATTGATCTTC+TGG 0.216595 2.2:-25355094 MS.gene066191:CDS
GACCCTTTGAACACATTTAC+TGG 0.221962 2.2:-25355122 MS.gene066191:CDS
AGAAAATGTGAAGTAGGTTT+TGG 0.326406 2.2:+25355903 None:intergenic
TTCTGGGCATTGAGGTTTCA+TGG 0.332313 2.2:-25355077 MS.gene066191:CDS
AGGGCGTGCCGCGTGTCCCT+TGG 0.359335 2.2:-25354968 MS.gene066191:CDS
TTGGTGAAGAGGTTTGTCTT+TGG 0.362955 2.2:+25355938 None:intergenic
GAGTTGGGAGATAAGGTTGT+AGG 0.369415 2.2:+25355970 None:intergenic
GGGAGATAAGGTTGTAGGTT+TGG 0.374951 2.2:+25355975 None:intergenic
GGGCGTGCCGCGTGTCCCTT+GGG 0.391041 2.2:-25354967 MS.gene066191:CDS
CGAAGAATGTGATATGGATT+AGG 0.391674 2.2:-25355001 MS.gene066191:CDS
TTTGATTGAGTTGGGAGATA+AGG 0.392649 2.2:+25355963 None:intergenic
ATGGATTAGGTGGAAACTTA+AGG 0.394506 2.2:-25354988 MS.gene066191:CDS
TGGAGTTTGAAGGGTGGCTA+AGG 0.408366 2.2:+25355848 None:intergenic
AAAGTACAAATTGATCTTCT+GGG 0.411012 2.2:-25355093 MS.gene066191:CDS
TTGACATAGAATTCATCCTT+TGG 0.425313 2.2:+25355780 None:intergenic
AGGTCTTTGATGAAGATCAT+AGG 0.436047 2.2:+25355720 None:intergenic
TGTTTATCTTGAACACTTGA+CGG 0.437362 2.2:+25355807 None:intergenic
AACCTTCGAAGAATGTGATA+TGG 0.437736 2.2:-25355007 MS.gene066191:CDS
TGGATTAGGTGGAAACTTAA+GGG 0.463830 2.2:-25354987 MS.gene066191:CDS
ATTCCAGTAAATGTGTTCAA+AGG 0.467787 2.2:+25355119 None:intergenic
AGAAGAAGAATCAGATGAAG+TGG 0.472139 2.2:+25355872 None:intergenic
TTCCAGTAAATGTGTTCAAA+GGG 0.481927 2.2:+25355120 None:intergenic
ACCTCAATTATGATATCTAT+AGG 0.485916 2.2:-25355701 MS.gene066191:intron
GATACAAGAAAATGTGAAGT+AGG 0.489505 2.2:+25355897 None:intergenic
GGAGTTTGAAGGGTGGCTAA+GGG 0.505819 2.2:+25355849 None:intergenic
AATTGATCTTCTGGGCATTG+AGG 0.508643 2.2:-25355085 MS.gene066191:CDS
GAAGCTAAAGGAGAATTTCA+AGG 0.512138 2.2:-25354945 MS.gene066191:CDS
ACCTATAGATATCATAATTG+AGG 0.529058 2.2:+25355700 None:intergenic
GATGAATTCTATGTCAACCT+TGG 0.529105 2.2:-25355774 MS.gene066191:CDS
CGTGTCCCTTGGGAAGCTAA+AGG 0.549445 2.2:-25354957 MS.gene066191:CDS
AATTCTCCTTTAGCTTCCCA+AGG 0.554730 2.2:+25354951 None:intergenic
TTGTGAAGTTGGAGTTTGAA+GGG 0.561912 2.2:+25355839 None:intergenic
CTTGTGAAGTTGGAGTTTGA+AGG 0.564715 2.2:+25355838 None:intergenic
ATCCATATCACATTCTTCGA+AGG 0.567194 2.2:+25355005 None:intergenic
GGTGTGTTAACTTGTGAAGT+TGG 0.574807 2.2:+25355828 None:intergenic
AGAATGTGATATGGATTAGG+TGG 0.583307 2.2:-25354998 MS.gene066191:CDS
GAGTTCTAACAGCAAGTCCA+AGG 0.595497 2.2:+25355757 None:intergenic
GATGAAAGAGTTTGGTGAAG+AGG 0.606204 2.2:+25355927 None:intergenic
ATTCTCCTTTAGCTTCCCAA+GGG 0.617667 2.2:+25354952 None:intergenic
TTAGCTTCCCAAGGGACACG+CGG 0.642123 2.2:+25354960 None:intergenic
CACTTGATGTATATAGAGTG+TGG 0.642892 2.2:-25355031 MS.gene066191:CDS
TCAAGATAAACAGCTTCCAA+AGG 0.645111 2.2:-25355796 MS.gene066191:CDS
TGAAGTTGGAGTTTGAAGGG+TGG 0.695576 2.2:+25355842 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAGATGTTATAAGAAA+TGG + chr2.2:25355279-25355298 None:intergenic 15.0%
!! TATCAATAGTTTAATACTAT+TGG + chr2.2:25355621-25355640 None:intergenic 15.0%
!! TATTTAATTGTACTATATAC+AGG - chr2.2:25355398-25355417 MS.gene066191:intron 15.0%
!! GTTTATAAAATGAGCTTATT+AGG - chr2.2:25355713-25355732 MS.gene066191:CDS 20.0%
!! TGTTAAATAGGCTTATAATA+GGG + chr2.2:25355349-25355368 None:intergenic 20.0%
!! TTACACATTAAGTGTTAAAT+AGG + chr2.2:25355361-25355380 None:intergenic 20.0%
!!! TGAAATTTGATCAATTTTCA+GGG - chr2.2:25355764-25355783 MS.gene066191:CDS 20.0%
!!! TTATTAGGTTGTGAATTTTA+AGG - chr2.2:25355728-25355747 MS.gene066191:CDS 20.0%
!!! TTGAAATTTGATCAATTTTC+AGG - chr2.2:25355763-25355782 MS.gene066191:CDS 20.0%
! AAAGTACAAATTGATCTTCT+GGG - chr2.2:25355833-25355852 MS.gene066191:CDS 25.0%
! ACCTATAGATATCATAATTG+AGG + chr2.2:25355229-25355248 None:intergenic 25.0%
! ACCTCAATTATGATATCTAT+AGG - chr2.2:25355225-25355244 MS.gene066191:intron 25.0%
! GTGTTAAATAGGCTTATAAT+AGG + chr2.2:25355350-25355369 None:intergenic 25.0%
! TTATAAGAAATGGTGAAATG+AGG + chr2.2:25355269-25355288 None:intergenic 25.0%
!! AAAAGTACAAATTGATCTTC+TGG - chr2.2:25355832-25355851 MS.gene066191:CDS 25.0%
!!! AGACAAGTTTTTTTATGCTT+AGG - chr2.2:25355504-25355523 MS.gene066191:intron 25.0%
AATTGTACTATATACAGGAC+CGG - chr2.2:25355403-25355422 MS.gene066191:intron 30.0%
ATTCCAGTAAATGTGTTCAA+AGG + chr2.2:25355810-25355829 None:intergenic 30.0%
GATACAAGAAAATGTGAAGT+AGG + chr2.2:25355032-25355051 None:intergenic 30.0%
TGTTTATCTTGAACACTTGA+CGG + chr2.2:25355122-25355141 None:intergenic 30.0%
TTCCAGTAAATGTGTTCAAA+GGG + chr2.2:25355809-25355828 None:intergenic 30.0%
TTGACATAGAATTCATCCTT+TGG + chr2.2:25355149-25355168 None:intergenic 30.0%
! AGAAAATGTGAAGTAGGTTT+TGG + chr2.2:25355026-25355045 None:intergenic 30.0%
! CAGGGATGATATAACATTTT+TGG - chr2.2:25355782-25355801 MS.gene066191:CDS 30.0%
!!! CTTTGGATTTTGATTGAGTT+GGG + chr2.2:25354974-25354993 None:intergenic 30.0%
!!! TCTTTGGATTTTGATTGAGT+TGG + chr2.2:25354975-25354994 None:intergenic 30.0%
AACCTTCGAAGAATGTGATA+TGG - chr2.2:25355919-25355938 MS.gene066191:CDS 35.0%
AGAAGAAGAATCAGATGAAG+TGG + chr2.2:25355057-25355076 None:intergenic 35.0%
AGGTCTTTGATGAAGATCAT+AGG + chr2.2:25355209-25355228 None:intergenic 35.0%
ATCCATATCACATTCTTCGA+AGG + chr2.2:25355924-25355943 None:intergenic 35.0%
CACTTGATGTATATAGAGTG+TGG - chr2.2:25355895-25355914 MS.gene066191:CDS 35.0%
CGAAGAATGTGATATGGATT+AGG - chr2.2:25355925-25355944 MS.gene066191:CDS 35.0%
GAAGCTAAAGGAGAATTTCA+AGG - chr2.2:25355981-25356000 MS.gene066191:CDS 35.0%
GATGAATTCTATGTCAACCT+TGG - chr2.2:25355152-25355171 MS.gene066191:intron 35.0%
TCAAGATAAACAGCTTCCAA+AGG - chr2.2:25355130-25355149 MS.gene066191:CDS 35.0%
TTATGCTTAGGAGTTGAACT+TGG - chr2.2:25355516-25355535 MS.gene066191:intron 35.0%
TTGTGAAGTTGGAGTTTGAA+GGG + chr2.2:25355090-25355109 None:intergenic 35.0%
! TGGATTAGGTGGAAACTTAA+GGG - chr2.2:25355939-25355958 MS.gene066191:CDS 35.0%
!! AGAATGTGATATGGATTAGG+TGG - chr2.2:25355928-25355947 MS.gene066191:CDS 35.0%
!! ATGGATTAGGTGGAAACTTA+AGG - chr2.2:25355938-25355957 MS.gene066191:CDS 35.0%
!! TTTGATTGAGTTGGGAGATA+AGG + chr2.2:25354966-25354985 None:intergenic 35.0%
!!! GTTTTGGTGATGAAAGAGTT+TGG + chr2.2:25355010-25355029 None:intergenic 35.0%
!!! TGTTTTGAAAACTCGATGTC+CGG + chr2.2:25355425-25355444 None:intergenic 35.0%
CTTGTGAAGTTGGAGTTTGA+AGG + chr2.2:25355091-25355110 None:intergenic 40.0%
GACCCTTTGAACACATTTAC+TGG - chr2.2:25355804-25355823 MS.gene066191:CDS 40.0%
TTGGTGAAGAGGTTTGTCTT+TGG + chr2.2:25354991-25355010 None:intergenic 40.0%
! AATTCTCCTTTAGCTTCCCA+AGG + chr2.2:25355978-25355997 None:intergenic 40.0%
! AATTGATCTTCTGGGCATTG+AGG - chr2.2:25355841-25355860 MS.gene066191:CDS 40.0%
! ATTCTCCTTTAGCTTCCCAA+GGG + chr2.2:25355977-25355996 None:intergenic 40.0%
! GATGAAAGAGTTTGGTGAAG+AGG + chr2.2:25355002-25355021 None:intergenic 40.0%
!! GGTGTGTTAACTTGTGAAGT+TGG + chr2.2:25355101-25355120 None:intergenic 40.0%
GAGTTGGGAGATAAGGTTGT+AGG + chr2.2:25354959-25354978 None:intergenic 45.0%
GGGAGATAAGGTTGTAGGTT+TGG + chr2.2:25354954-25354973 None:intergenic 45.0%
TGAAGTTGGAGTTTGAAGGG+TGG + chr2.2:25355087-25355106 None:intergenic 45.0%
! GAGTTCTAACAGCAAGTCCA+AGG + chr2.2:25355172-25355191 None:intergenic 45.0%
!! TTCTGGGCATTGAGGTTTCA+TGG - chr2.2:25355849-25355868 MS.gene066191:CDS 45.0%
CTATTGGAGTCTAGCGCAAG+TGG + chr2.2:25355605-25355624 None:intergenic 50.0%
GGAGTTTGAAGGGTGGCTAA+GGG + chr2.2:25355080-25355099 None:intergenic 50.0%
TGGAGTTTGAAGGGTGGCTA+AGG + chr2.2:25355081-25355100 None:intergenic 50.0%
CGTGTCCCTTGGGAAGCTAA+AGG - chr2.2:25355969-25355988 MS.gene066191:CDS 55.0%
TGGAGTCTAGCGCAAGTGGT+TGG + chr2.2:25355601-25355620 None:intergenic 55.0%
TTAGCTTCCCAAGGGACACG+CGG + chr2.2:25355969-25355988 None:intergenic 55.0%
! GGTTGGTGCATGTGGTGTGT+CGG + chr2.2:25355584-25355603 None:intergenic 55.0%
! GCGCAAGTGGTTGGTGCATG+TGG + chr2.2:25355592-25355611 None:intergenic 60.0%
AGGGCGTGCCGCGTGTCCCT+TGG - chr2.2:25355958-25355977 MS.gene066191:CDS 75.0%
GGGCGTGCCGCGTGTCCCTT+GGG - chr2.2:25355959-25355978 MS.gene066191:CDS 75.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 25354936 25356012 25354936 ID=MS.gene066191
chr2.2 mRNA 25354936 25356012 25354936 ID=MS.gene066191.t1;Parent=MS.gene066191
chr2.2 exon 25355702 25356012 25355702 ID=MS.gene066191.t1.exon1;Parent=MS.gene066191.t1
chr2.2 CDS 25355702 25356012 25355702 ID=cds.MS.gene066191.t1;Parent=MS.gene066191.t1
chr2.2 exon 25354936 25355163 25354936 ID=MS.gene066191.t1.exon2;Parent=MS.gene066191.t1
chr2.2 CDS 25354936 25355163 25354936 ID=cds.MS.gene066191.t1;Parent=MS.gene066191.t1
Gene Sequence

>MS.gene066191

ATGGCTTTTCTTCTACCAAACCTACAACCTTATCTCCCAACTCAATCAAAATCCAAAGACAAACCTCTTCACCAAACTCTTTCATCACCAAAACCTACTTCACATTTTCTTGTATCTTCCACTTCATCTGATTCTTCTTCTCCCTTAGCCACCCTTCAAACTCCAACTTCACAAGTTAACACACCGTCAAGTGTTCAAGATAAACAGCTTCCAAAGGATGAATTCTATGTCAACCTTGGACTTGCTGTTAGAACTCTTCGTGAAGACATGCCTATGATCTTCATCAAAGACCTCAATTATGATATCTATAGGTTATTTGACTATTTCTCACCTCATTTCACCATTTCTTATAACATCTTTTTTTGATTATTTTTGATATATAATTATTCTAACTTTTATTATGTCATCATCCCTATTATAAGCCTATTTAACACTTAATGTGTAAATTTTGTATATGAATATTATTTAATTGTACTATATACAGGACCGGACATCGAGTTTTCAAAACAAAAAAAAAAATTGCACTATATACAAAGATATGTTCAATATTTATTTTTCTTTTCTTCTAAGACAAGTTTTTTTATGCTTAGGAGTTGAACTTGGCATCTCGATATTTACAACACTAGCACACGCAAGAGTGTAACACCGACACACCACATGCACCAACCACTTGCGCTAGACTCCAATAGTATTAAACTATTGATAAATGATGTAATTTTTTTTATAAAAAGATAGCTAGTAATTTGAAATGATGTTTATATTTTTTATTTTTCGTTTGTTTATAAAATGAGCTTATTAGGTTGTGAATTTTAAGGAGCTTATTTTCATTGAAATTTGATCAATTTTCAGGGATGATATAACATTTTTGGACCCTTTGAACACATTTACTGGAATTGAAAAGTACAAATTGATCTTCTGGGCATTGAGGTTTCATGGTAAGCTCTTGTTTCATGATATAGCACTTGATGTATATAGAGTGTGGCAACCTTCGAAGAATGTGATATGGATTAGGTGGAAACTTAAGGGCGTGCCGCGTGTCCCTTGGGAAGCTAAAGGAGAATTTCAAGGCACTTCAAA
Protein sequence

>MS.gene066191.t1

MAFLLPNLQPYLPTQSKSKDKPLHQTLSSPKPTSHFLVSSTSSDSSSPLATLQTPTSQVNTPSSVQDKQLPKDEFYVNLGLAVRTLREDMPMIFIKDLNYDIYRDDITFLDPLNTFTGIEKYKLIFWALRFHGKLLFHDIALDVYRVWQPSKNVIWIRWKLKGVPRVPWEAKGEFQGTS