AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058881

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

Find 33 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTATCCTTTGATTAGTTT+GGG 0.217519 6.2:-39513806 None:intergenic
AAACTATCCTTTGATTAGTT+TGG 0.231148 6.2:-39513807 None:intergenic
TGCTCATCTCTTCTTTCTCT+TGG 0.271304 6.2:-39513122 None:intergenic
CAAAACTCTATCTTCTCTTT+TGG 0.321800 6.2:-39513756 None:intergenic
TCTTTCTCTTGGTCATTCTC+AGG 0.376250 6.2:-39513111 None:intergenic
GCTACCCACTGCTGAAGAAT+AGG 0.395959 6.2:-39513151 None:intergenic
ACATCGATGTGAGGTATCAT+TGG 0.435433 6.2:+39513646 MS.gene058881:intron
CATATCTGCTCCATTGTCAT+TGG 0.455158 6.2:-39513718 None:intergenic
AACACTGGAGTGCTGTGAAA+TGG 0.463543 6.2:+39513259 MS.gene058881:CDS
CCTGTGCATGTTCCGCTACC+TGG 0.472224 6.2:+39513060 MS.gene058881:CDS
CTACCCACTGCTGAAGAATA+GGG 0.473406 6.2:-39513150 None:intergenic
ATCCTTTGATTAGTTTGGGG+TGG 0.486951 6.2:-39513802 None:intergenic
TGCAGACCATGGCGTACATA+AGG 0.500035 6.2:-39513173 None:intergenic
TTGTAAAGAAGCTGCAGGCT+TGG 0.530111 6.2:+39513776 MS.gene058881:CDS
ATCTCAAGAAAGTTCTTGAA+AGG 0.540106 6.2:+39513016 MS.gene058881:CDS
CCTACAGCATAACCGATGTC+TGG 0.542961 6.2:-39513201 None:intergenic
CCAGACATCGGTTATGCTGT+AGG 0.556943 6.2:+39513201 MS.gene058881:CDS
GTCTGGCCTCGTGCAGACCA+TGG 0.563338 6.2:-39513184 None:intergenic
CCAGGTAGCGGAACATGCAC+AGG 0.572979 6.2:-39513060 None:intergenic
TCATTGGATACGTGATGTGT+TGG 0.576055 6.2:+39513662 MS.gene058881:CDS
AAAATTCATACCAATGACAA+TGG 0.582534 6.2:+39513708 MS.gene058881:CDS
TTACTGAGTTTCATATGACC+AGG 0.584762 6.2:-39513078 None:intergenic
GTGCCCTATTCTTCAGCAGT+GGG 0.600613 6.2:+39513147 MS.gene058881:CDS
GGTGCCCTATTCTTCAGCAG+TGG 0.613159 6.2:+39513146 MS.gene058881:CDS
ACTATCCTTTGATTAGTTTG+GGG 0.614975 6.2:-39513805 None:intergenic
GGGTAGCCTTATGTACGCCA+TGG 0.620781 6.2:+39513167 MS.gene058881:CDS
CAAACCCAGGAAAAGAACAC+TGG 0.623987 6.2:+39513244 MS.gene058881:CDS
AGAGAAAGAAGAGATGAGCA+AGG 0.630245 6.2:+39513125 MS.gene058881:CDS
GTCTGCACGAGGCCAGACAT+CGG 0.643214 6.2:+39513189 MS.gene058881:CDS
AGTAGATTCCTATCAAACCC+AGG 0.660954 6.2:+39513231 MS.gene058881:CDS
AGTTTCATATGACCAGGTAG+CGG 0.678545 6.2:-39513072 None:intergenic
TGTACGCCATGGTCTGCACG+AGG 0.697121 6.2:+39513178 MS.gene058881:CDS
GTGCTGTGAAATGGATACTG+AGG 0.727600 6.2:+39513268 MS.gene058881:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAATTCATACCAATGACAA+TGG + chr6.2:39513708-39513727 MS.gene058881:CDS 25.0%
! TGCAAAAGTAATCAAATATC+CGG - chr6.2:39513406-39513425 None:intergenic 25.0%
!!! ATATTTGATTACTTTTGCAG+GGG + chr6.2:39513407-39513426 MS.gene058881:intron 25.0%
!!! GATATTTGATTACTTTTGCA+GGG + chr6.2:39513406-39513425 MS.gene058881:intron 25.0%
ATCTCAAGAAAGTTCTTGAA+AGG + chr6.2:39513016-39513035 MS.gene058881:CDS 30.0%
GAACATAACTTTCTTGATTC+TGG - chr6.2:39513560-39513579 None:intergenic 30.0%
! CAAAACTCTATCTTCTCTTT+TGG - chr6.2:39513759-39513778 None:intergenic 30.0%
! TTTTCTTGAATCTACATCTC+CGG - chr6.2:39513376-39513395 None:intergenic 30.0%
!! GGATATTTGATTACTTTTGC+AGG + chr6.2:39513405-39513424 MS.gene058881:intron 30.0%
!! TATTTGATTACTTTTGCAGG+GGG + chr6.2:39513408-39513427 MS.gene058881:intron 30.0%
AGAATTCGACATACCATTCA+AGG + chr6.2:39513616-39513635 MS.gene058881:intron 35.0%
AGTAATCAAATATCCGGATG+TGG - chr6.2:39513400-39513419 None:intergenic 35.0%
GATTCAAGAAAATCCACATC+CGG + chr6.2:39513384-39513403 MS.gene058881:intron 35.0%
TTACTGAGTTTCATATGACC+AGG - chr6.2:39513081-39513100 None:intergenic 35.0%
! GCCAAAACATAAGCACTTTT+TGG - chr6.2:39513310-39513329 None:intergenic 35.0%
! TGGATACTGAGGTATCTAAA+AGG + chr6.2:39513279-39513298 MS.gene058881:intron 35.0%
!!! AAGTGCTTATGTTTTGGCAA+TGG + chr6.2:39513312-39513331 MS.gene058881:intron 35.0%
!!! GCCAAAAAGTGCTTATGTTT+TGG + chr6.2:39513306-39513325 MS.gene058881:intron 35.0%
AAGAAGTTCCTGCAAGAGTT+AGG + chr6.2:39513534-39513553 MS.gene058881:intron 40.0%
AATGGAAATCAAATGCTCGC+TGG + chr6.2:39513330-39513349 MS.gene058881:intron 40.0%
AGAGAAAGAAGAGATGAGCA+AGG + chr6.2:39513125-39513144 MS.gene058881:CDS 40.0%
AGTAGATTCCTATCAAACCC+AGG + chr6.2:39513231-39513250 MS.gene058881:CDS 40.0%
AGTTTCATATGACCAGGTAG+CGG - chr6.2:39513075-39513094 None:intergenic 40.0%
CATATCTGCTCCATTGTCAT+TGG - chr6.2:39513721-39513740 None:intergenic 40.0%
TCATTGGATACGTGATGTGT+TGG + chr6.2:39513662-39513681 MS.gene058881:CDS 40.0%
TCTTTCTCTTGGTCATTCTC+AGG - chr6.2:39513114-39513133 None:intergenic 40.0%
TGCTCATCTCTTCTTTCTCT+TGG - chr6.2:39513125-39513144 None:intergenic 40.0%
TGGTTACGTAGATGCTGATA+TGG + chr6.2:39513350-39513369 MS.gene058881:intron 40.0%
! ACATCGATGTGAGGTATCAT+TGG + chr6.2:39513646-39513665 MS.gene058881:intron 40.0%
! GTTCTTTTCCTGGGTTTGAT+AGG - chr6.2:39513242-39513261 None:intergenic 40.0%
!! GAGTTTTGTAAAGAAGCTGC+AGG + chr6.2:39513771-39513790 MS.gene058881:CDS 40.0%
!!! CGATGTGTTTTGACCTTGAA+TGG - chr6.2:39513632-39513651 None:intergenic 40.0%
AAGGTTGTAAGGAGATCCTG+TGG + chr6.2:39513508-39513527 MS.gene058881:intron 45.0%
CAAACCCAGGAAAAGAACAC+TGG + chr6.2:39513244-39513263 MS.gene058881:CDS 45.0%
CGCAATCACTGAAGGTTGTA+AGG + chr6.2:39513497-39513516 MS.gene058881:intron 45.0%
CTACCCACTGCTGAAGAATA+GGG - chr6.2:39513153-39513172 None:intergenic 45.0%
GAGTACATCGCAATCACTGA+AGG + chr6.2:39513489-39513508 MS.gene058881:intron 45.0%
GGTATGTCGAATTCTTGCTG+AGG - chr6.2:39513611-39513630 None:intergenic 45.0%
GGTCAAAACACATCGATGTG+AGG + chr6.2:39513637-39513656 MS.gene058881:intron 45.0%
GTGCTGTGAAATGGATACTG+AGG + chr6.2:39513268-39513287 MS.gene058881:CDS 45.0%
TACGTAGATGCTGATATGGC+CGG + chr6.2:39513354-39513373 MS.gene058881:intron 45.0%
TGCTGAGGTGAATTGCACTT+TGG - chr6.2:39513596-39513615 None:intergenic 45.0%
TTGTAAAGAAGCTGCAGGCT+TGG + chr6.2:39513776-39513795 MS.gene058881:CDS 45.0%
! CACTCCAGTGTTCTTTTCCT+GGG - chr6.2:39513251-39513270 None:intergenic 45.0%
!! AACACTGGAGTGCTGTGAAA+TGG + chr6.2:39513259-39513278 MS.gene058881:CDS 45.0%
CCTACAGCATAACCGATGTC+TGG - chr6.2:39513204-39513223 None:intergenic 50.0%
GATTCTGGCCTAACTCTTGC+AGG - chr6.2:39513545-39513564 None:intergenic 50.0%
GCAGGAACTTCTTCATCCAC+AGG - chr6.2:39513527-39513546 None:intergenic 50.0%
GCTACCCACTGCTGAAGAAT+AGG - chr6.2:39513154-39513173 None:intergenic 50.0%
GTGCCCTATTCTTCAGCAGT+GGG + chr6.2:39513147-39513166 MS.gene058881:CDS 50.0%
TGCAGACCATGGCGTACATA+AGG - chr6.2:39513176-39513195 None:intergenic 50.0%
TGCGATGTACTCTGCTTCTG+TGG - chr6.2:39513481-39513500 None:intergenic 50.0%
! CCAGACATCGGTTATGCTGT+AGG + chr6.2:39513201-39513220 MS.gene058881:CDS 50.0%
! GCACTCCAGTGTTCTTTTCC+TGG - chr6.2:39513252-39513271 None:intergenic 50.0%
GGTGCCCTATTCTTCAGCAG+TGG + chr6.2:39513146-39513165 MS.gene058881:CDS 55.0%
!! GGGTAGCCTTATGTACGCCA+TGG + chr6.2:39513167-39513186 MS.gene058881:CDS 55.0%
CCTGTGCATGTTCCGCTACC+TGG + chr6.2:39513060-39513079 MS.gene058881:CDS 60.0%
GTCTGCACGAGGCCAGACAT+CGG + chr6.2:39513189-39513208 MS.gene058881:CDS 60.0%
TGTACGCCATGGTCTGCACG+AGG + chr6.2:39513178-39513197 MS.gene058881:CDS 60.0%
TTGCAGGGGGAGCTGTCTCA+TGG + chr6.2:39513421-39513440 MS.gene058881:intron 60.0%
!! CCAGGTAGCGGAACATGCAC+AGG - chr6.2:39513063-39513082 None:intergenic 60.0%
GTCTGGCCTCGTGCAGACCA+TGG - chr6.2:39513187-39513206 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 39512991 39513815 39512991 ID=MS.gene058881
chr6.2 mRNA 39512991 39513815 39512991 ID=MS.gene058881.t1;Parent=MS.gene058881
chr6.2 exon 39512991 39513289 39512991 ID=MS.gene058881.t1.exon1;Parent=MS.gene058881.t1
chr6.2 CDS 39512991 39513289 39512991 ID=cds.MS.gene058881.t1;Parent=MS.gene058881.t1
chr6.2 exon 39513659 39513815 39513659 ID=MS.gene058881.t1.exon2;Parent=MS.gene058881.t1
chr6.2 CDS 39513659 39513815 39513659 ID=cds.MS.gene058881.t1;Parent=MS.gene058881.t1
Gene Sequence

>MS.gene058881

ATGCTGTGGATGTCACAAGAAGAATATCTCAAGAAAGTTCTTGAAAGGTTCAACATGCATAATGCAAAACCTGTGCATGTTCCGCTACCTGGTCATATGAAACTCAGTAAGACACAATGTCCTGAGAATGACCAAGAGAAAGAAGAGATGAGCAAGGTGCCCTATTCTTCAGCAGTGGGTAGCCTTATGTACGCCATGGTCTGCACGAGGCCAGACATCGGTTATGCTGTAGGAGTCGTGAGTAGATTCCTATCAAACCCAGGAAAAGAACACTGGAGTGCTGTGAAATGGATACTGAGGTATCTAAAAGGAACTGCCAAAAAGTGCTTATGTTTTGGCAATGGAAATCAAATGCTCGCTGGTTACGTAGATGCTGATATGGCCGGAGATGTAGATTCAAGAAAATCCACATCCGGATATTTGATTACTTTTGCAGGGGGAGCTGTCTCATGGCAATCACGACTACAAAAGTGCGTTGCTTTAAGTACCACAGAAGCAGAGTACATCGCAATCACTGAAGGTTGTAAGGAGATCCTGTGGATGAAGAAGTTCCTGCAAGAGTTAGGCCAGAATCAAGAAAGTTATGTTCTCTATTGTGATAGCCAAAGTGCAATTCACCTCAGCAAGAATTCGACATACCATTCAAGGTCAAAACACATCGATGTGAGGTATCATTGGATACGTGATGTGTTGGAGAATAAACTGCTGCGAATAGAGAAAATTCATACCAATGACAATGGAGCAGATATGATGACAAAAGCTCTACCAAAAGAGAAGATAGAGTTTTGTAAAGAAGCTGCAGGCTTGGCAGCCACCCCAAACTAA
Protein sequence

>MS.gene058881.t1

MLWMSQEEYLKKVLERFNMHNAKPVHVPLPGHMKLSKTQCPENDQEKEEMSKVPYSSAVGSLMYAMVCTRPDIGYAVGVVSRFLSNPGKEHWSAVKWILRYHWIRDVLENKLLRIEKIHTNDNGADMMTKALPKEKIEFCKEAAGLAATPN