AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068378

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068378.t1 MTR_7g104900 88.462 26 3 0 33 58 112 137 1.30e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 10 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTCTTCTTGGAACTTC+AGG 0.302039 8.3:-67078417 None:intergenic
CTGGCACTAGGAGGTCTTCT+TGG 0.357672 8.3:-67078426 None:intergenic
TTCAGGTCTCAAGCTCTTCA+AGG 0.366158 8.3:+67078311 MS.gene068378:intron
ACTTCAGGTTCAAATTCAAC+AGG 0.454247 8.3:-67078402 None:intergenic
TATACACCTCTATATACAAC+AGG 0.487910 8.3:-67077709 None:intergenic
GCAGATCCTGTTGTATATAG+AGG 0.490683 8.3:+67077703 MS.gene068378:CDS
CAAGAAGACCTCCTAGTGCC+AGG 0.530845 8.3:+67078427 MS.gene068378:CDS
TAGTCTTACAACCTGGCACT+AGG 0.579723 8.3:-67078438 None:intergenic
TCTTACAACCTGGCACTAGG+AGG 0.662760 8.3:-67078435 None:intergenic
AATATTCTAGTCTTACAACC+TGG 0.682996 8.3:-67078445 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCAGAAATTGATTTTATTA+GGG - chr8.3:67078231-67078250 None:intergenic 15.0%
!!! TTTTTTTTTACAGATGAAAT+AGG - chr8.3:67078189-67078208 None:intergenic 15.0%
!!! AATATTTGAGGGTTTTAATT+TGG + chr8.3:67078108-67078127 MS.gene068378:intron 20.0%
!!! ATAAATATTTCAGACGATTT+TGG - chr8.3:67077981-67078000 None:intergenic 20.0%
!!! CTTCAGAAATTGATTTTATT+AGG - chr8.3:67078232-67078251 None:intergenic 20.0%
!!! TAAATATTTCAGACGATTTT+GGG - chr8.3:67077980-67077999 None:intergenic 20.0%
!!! TACTAAAAAAACTGTGTTTT+CGG + chr8.3:67077863-67077882 MS.gene068378:intron 20.0%
! ATTTATGACATGTTCAAACA+AGG + chr8.3:67077995-67078014 MS.gene068378:intron 25.0%
! TTCTCATGTTAATGTCTTTA+AGG + chr8.3:67077765-67077784 MS.gene068378:intron 25.0%
!! TTTTACAGATGAAATAGGAA+AGG - chr8.3:67078184-67078203 None:intergenic 25.0%
GGCAAAATGGTAAAATCATA+GGG - chr8.3:67077831-67077850 None:intergenic 30.0%
TATACACCTCTATATACAAC+AGG - chr8.3:67077712-67077731 None:intergenic 30.0%
TCAAAATTTCACACGGATTT+GGG - chr8.3:67078070-67078089 None:intergenic 30.0%
TCCGAAAAAATCAGACAAAA+AGG - chr8.3:67077909-67077928 None:intergenic 30.0%
TTTATTAGGGTTGTGAAAGA+GGG - chr8.3:67078218-67078237 None:intergenic 30.0%
! AAAAAAACTGTGTTTTCGGA+CGG + chr8.3:67077867-67077886 MS.gene068378:intron 30.0%
! GAAGAGTTTGAGAATGTTTT+TGG - chr8.3:67078273-67078292 None:intergenic 30.0%
! GCCTTTTTGTCTGATTTTTT+CGG + chr8.3:67077905-67077924 MS.gene068378:intron 30.0%
! TTTTATTAGGGTTGTGAAAG+AGG - chr8.3:67078219-67078238 None:intergenic 30.0%
!! TTTTTAGTAGTGCCTCTTAT+GGG - chr8.3:67077852-67077871 None:intergenic 30.0%
!!! TGAAATTTTGAGACGGATTT+CGG + chr8.3:67078079-67078098 MS.gene068378:intron 30.0%
!!! TTTTGTCTGATTTTTTCGGA+CGG + chr8.3:67077909-67077928 MS.gene068378:intron 30.0%
!!! TTTTTTAGTAGTGCCTCTTA+TGG - chr8.3:67077853-67077872 None:intergenic 30.0%
AAAATTCGAAGTGAGAGAAG+AGG - chr8.3:67078147-67078166 None:intergenic 35.0%
AAATTCGAAGTGAGAGAAGA+GGG - chr8.3:67078146-67078165 None:intergenic 35.0%
ATCCGTCTCAAAATTTCACA+CGG - chr8.3:67078077-67078096 None:intergenic 35.0%
CTCAAAATTTCACACGGATT+TGG - chr8.3:67078071-67078090 None:intergenic 35.0%
GGGCAAAATGGTAAAATCAT+AGG - chr8.3:67077832-67077851 None:intergenic 35.0%
TTATTAGGGTTGTGAAAGAG+GGG - chr8.3:67078217-67078236 None:intergenic 35.0%
TTCGGACGGTTAATATTTGA+GGG + chr8.3:67078097-67078116 MS.gene068378:intron 35.0%
TTTCGGACGGTTAATATTTG+AGG + chr8.3:67078096-67078115 MS.gene068378:intron 35.0%
! ACTTCAGGTTCAAATTCAAC+AGG - chr8.3:67078405-67078424 None:intergenic 35.0%
! CAATCTTTTGATCGTTTTCG+TGG + chr8.3:67078366-67078385 MS.gene068378:CDS 35.0%
! TTCACGTTTTCAATCTCTTC+AGG + chr8.3:67078294-67078313 MS.gene068378:intron 35.0%
! TTTACCATTTTGCCCATAAG+AGG + chr8.3:67077837-67077856 MS.gene068378:intron 35.0%
!! ATCCGTGTGAAATTTTGAGA+CGG + chr8.3:67078072-67078091 MS.gene068378:intron 35.0%
!! TATTTCAGACGATTTTGGGA+CGG - chr8.3:67077976-67077995 None:intergenic 35.0%
!!! TGATTTTTTCGGACGGATTT+GGG + chr8.3:67077916-67077935 MS.gene068378:intron 35.0%
AAAATCCGTGCGAAATTCGT+GGG - chr8.3:67078027-67078046 None:intergenic 40.0%
AATTTCACACGGATTTGGGA+CGG - chr8.3:67078066-67078085 None:intergenic 40.0%
GCAGATCCTGTTGTATATAG+AGG + chr8.3:67077703-67077722 MS.gene068378:CDS 40.0%
! GATCGTTTTCGTGGTTTTCT+TGG + chr8.3:67078375-67078394 MS.gene068378:CDS 40.0%
! GTGTTTTCGGACGGAATTTT+CGG + chr8.3:67077876-67077895 MS.gene068378:intron 40.0%
!! CGGATTTGGGACAGTTTTAA+CGG + chr8.3:67077929-67077948 MS.gene068378:intron 40.0%
!!! ATTTTGAGACGGATTTCGGA+CGG + chr8.3:67078083-67078102 MS.gene068378:intron 40.0%
!!! CTGATTTTTTCGGACGGATT+TGG + chr8.3:67077915-67077934 MS.gene068378:intron 40.0%
AGTGCCTCTTATGGGCAAAA+TGG - chr8.3:67077844-67077863 None:intergenic 45.0%
GAAAATCCGTGCGAAATTCG+TGG - chr8.3:67078028-67078047 None:intergenic 45.0%
TTCAGGTCTCAAGCTCTTCA+AGG + chr8.3:67078311-67078330 MS.gene068378:intron 45.0%
TTGTTCCCACGAATTTCGCA+CGG + chr8.3:67078019-67078038 MS.gene068378:intron 45.0%
! TTTCGGACGGAATTTTCGGA+CGG + chr8.3:67077880-67077899 MS.gene068378:intron 45.0%
!!! AGACGATTTTGGGACGGATT+TGG - chr8.3:67077970-67077989 None:intergenic 45.0%
!!! GACGATTTTGGGACGGATTT+GGG - chr8.3:67077969-67077988 None:intergenic 45.0%
GGAGGTCTTCTTGGAACTTC+AGG - chr8.3:67078420-67078439 None:intergenic 50.0%
CAAGAAGACCTCCTAGTGCC+AGG + chr8.3:67078427-67078446 MS.gene068378:CDS 55.0%
CTGGCACTAGGAGGTCTTCT+TGG - chr8.3:67078429-67078448 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 67077682 67078455 67077682 ID=MS.gene068378
chr8.3 mRNA 67077682 67078455 67077682 ID=MS.gene068378.t1;Parent=MS.gene068378
chr8.3 exon 67077682 67077724 67077682 ID=MS.gene068378.t1.exon1;Parent=MS.gene068378.t1
chr8.3 CDS 67077682 67077724 67077682 ID=cds.MS.gene068378.t1;Parent=MS.gene068378.t1
chr8.3 exon 67078316 67078455 67078316 ID=MS.gene068378.t1.exon2;Parent=MS.gene068378.t1
chr8.3 CDS 67078316 67078455 67078316 ID=cds.MS.gene068378.t1;Parent=MS.gene068378.t1
Gene Sequence

>MS.gene068378

ATGTGCTTGATTACTTTGAAAGCAGATCCTGTTGTATATAGAGGTGTATATGCTCAAAATCTCTAATGTAATTTACTCATTCATTCTCATGTTAATGTCTTTAAGGTTCATACGTATAATCTACTTACTATATATAAAATATAAATCCCTATGATTTTACCATTTTGCCCATAAGAGGCACTACTAAAAAAACTGTGTTTTCGGACGGAATTTTCGGACGGAAGCCTTTTTGTCTGATTTTTTCGGACGGATTTGGGACAGTTTTAACGGAGCGAAATTTTCGTCCCAAATCCGTCCCAAAATCGTCTGAAATATTTATGACATGTTCAAACAAGGTTTGTTCCCACGAATTTCGCACGGATTTTCTTAAAAAAAACAAATCCGTCCCAAATCCGTGTGAAATTTTGAGACGGATTTCGGACGGTTAATATTTGAGGGTTTTAATTTGGAAAATTTCATATCCCTCTTCTCTCACTTCGAATTTTCATTCACGTTTGCGCCTTTCCTATTTCATCTGTAAAAAAAAAACTTTCCCCTCTTTCACAACCCTAATAAAATCAATTTCTGAAGCTAATCAATCAATATCTTCCAAAAACATTCTCAAACTCTTCATTCACGTTTTCAATCTCTTCAGGTCTCAAGCTCTTCAAGGTTTGCTTCTCTTCTCTTCATTCAAGTGTTTTTCAATCTTTTGATCGTTTTCGTGGTTTTCTTGGTTTGCCTGTTGAATTTGAACCTGAAGTTCCAAGAAGACCTCCTAGTGCCAGGTTGTAA
Protein sequence

>MS.gene068378.t1

MCLITLKADPVVYRGLKLFKVCFSSLHSSVFQSFDRFRGFLGLPVEFEPEVPRRPPSARL