AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057194


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057194.t1 MTR_3g092020 98.450 129 2 0 1 129 34 162 6.30e-91 260
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCCCATCTCTCCTTAAAA+AGG 0.245866 3.2:-77493274 None:intergenic
CTCCTCTTGGTTCAAAATCA+TGG 0.393681 3.2:+77493318 MS.gene057194:CDS
GAGATCATGTCGAGGAATCT+TGG 0.402090 3.2:+77493972 MS.gene057194:CDS
TGGCCTCGGACAATGCTCTA+TGG 0.432233 3.2:+77493246 MS.gene057194:CDS
TTATATCACACGGCTGCGTT+TGG 0.432650 3.2:-77494043 None:intergenic
GGTGAGGTACAACGATATCT+AGG 0.477811 3.2:+77493865 MS.gene057194:CDS
AGTTCAGAAACAGACTTCAC+TGG 0.488792 3.2:+77493928 MS.gene057194:CDS
GAAGTGGAAGCTCATGGCCT+CGG 0.508465 3.2:+77493232 None:intergenic
GGTTTGAAGATTGTTAGAGA+AGG 0.530829 3.2:+77493817 MS.gene057194:CDS
ATCATGGAAAGAAGTGTATG+AGG 0.545115 3.2:+77493334 MS.gene057194:CDS
CAAGATCGATGCGATCGAGT+TGG 0.561970 3.2:+77493359 MS.gene057194:CDS
GATATCGTTGTACCTCACCT+TGG 0.640965 3.2:-77493861 None:intergenic
CTATCTTGTTCACCAAGGTG+AGG 0.666547 3.2:+77493849 MS.gene057194:CDS
GTAGAGATGGTTATATCACA+CGG 0.677630 3.2:-77494053 None:intergenic
TGACCATAGAGCATTGTCCG+AGG 0.683112 3.2:-77493249 None:intergenic
GCTGAAGAGAGATCATGTCG+AGG 0.706201 3.2:+77493964 MS.gene057194:CDS
GACTACTATCTTGTTCACCA+AGG 0.711703 3.2:+77493844 MS.gene057194:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATTAATTAATAATAATTT+TGG + chr3.2:77493547-77493566 MS.gene057194:intron 0.0%
!!! TTTTAGAAGAAAAAAAATAT+GGG - chr3.2:77493576-77493595 None:intergenic 10.0%
!!! ACAAAATTCTTTTTTTCATT+GGG + chr3.2:77493995-77494014 MS.gene057194:CDS 15.0%
!!! ATAATTTGTTATGTTGAATA+TGG - chr3.2:77493681-77493700 None:intergenic 15.0%
!!! GTTTTAGAAGAAAAAAAATA+TGG - chr3.2:77493577-77493596 None:intergenic 15.0%
!!! TTTTAATTCTTCACAAAATA+GGG + chr3.2:77493795-77493814 MS.gene057194:intron 15.0%
!!! TTTTTAATTCTTCACAAAAT+AGG + chr3.2:77493794-77493813 MS.gene057194:intron 15.0%
!! TTTAATTCTTCACAAAATAG+GGG + chr3.2:77493796-77493815 MS.gene057194:intron 20.0%
!!! CAAAATTCTTTTTTTCATTG+GGG + chr3.2:77493996-77494015 MS.gene057194:CDS 20.0%
!!! GACAAAATTCTTTTTTTCAT+TGG + chr3.2:77493994-77494013 MS.gene057194:CDS 20.0%
! AAAATCTCCTTCAATAATCA+TGG - chr3.2:77493467-77493486 None:intergenic 25.0%
! ATCTAGGTTCAAGAAAAAAT+CGG + chr3.2:77493881-77493900 MS.gene057194:CDS 25.0%
! TTAAATGCCATGATTATTGA+AGG + chr3.2:77493457-77493476 MS.gene057194:intron 25.0%
TTATTGAACTCTGACACAAA+GGG + chr3.2:77493764-77493783 MS.gene057194:intron 30.0%
TTTCTGCACACTTATAACAT+TGG + chr3.2:77493611-77493630 MS.gene057194:intron 30.0%
! TCTATGGTCAAACCTTTTTA+AGG + chr3.2:77493262-77493281 MS.gene057194:CDS 30.0%
!! AAACCTTTTTAAGGAGAGAT+GGG + chr3.2:77493271-77493290 MS.gene057194:CDS 30.0%
!!! TCTTTTTTTCATTGGGGATT+TGG + chr3.2:77494002-77494021 MS.gene057194:CDS 30.0%
ATAATTGCAAGCGTGTGATT+AGG - chr3.2:77493501-77493520 None:intergenic 35.0%
ATTATTCTTGTCCCTTGAGA+TGG + chr3.2:77493516-77493535 MS.gene057194:intron 35.0%
CACACTTATAACATTGGTGT+TGG + chr3.2:77493617-77493636 MS.gene057194:intron 35.0%
CTAAAGCAAATCCAAGTAAG+AGG - chr3.2:77493646-77493665 None:intergenic 35.0%
CTTATTGAACTCTGACACAA+AGG + chr3.2:77493763-77493782 MS.gene057194:intron 35.0%
GGTTTGAAGATTGTTAGAGA+AGG + chr3.2:77493817-77493836 MS.gene057194:CDS 35.0%
! ATAATTTTCACGCCATCTCA+AGG - chr3.2:77493531-77493550 None:intergenic 35.0%
! ATCATGGAAAGAAGTGTATG+AGG + chr3.2:77493334-77493353 MS.gene057194:CDS 35.0%
! TAATTTTCACGCCATCTCAA+GGG - chr3.2:77493530-77493549 None:intergenic 35.0%
! TTCCATGATTTTGAACCAAG+AGG - chr3.2:77493323-77493342 None:intergenic 35.0%
!! AACCTTTTTAAGGAGAGATG+GGG + chr3.2:77493272-77493291 MS.gene057194:CDS 35.0%
!! CAAACCTTTTTAAGGAGAGA+TGG + chr3.2:77493270-77493289 MS.gene057194:CDS 35.0%
AAAAATCGGCGACAAGTATC+TGG + chr3.2:77493895-77493914 MS.gene057194:CDS 40.0%
AGTTCAGAAACAGACTTCAC+TGG + chr3.2:77493928-77493947 MS.gene057194:CDS 40.0%
CTCCTCTTGGTTCAAAATCA+TGG + chr3.2:77493318-77493337 MS.gene057194:CDS 40.0%
GACTACTATCTTGTTCACCA+AGG + chr3.2:77493844-77493863 MS.gene057194:CDS 40.0%
TTACTCTGCTGAGAGTAGTA+CGG + chr3.2:77493399-77493418 MS.gene057194:intron 40.0%
CTATCTTGTTCACCAAGGTG+AGG + chr3.2:77493849-77493868 MS.gene057194:CDS 45.0%
CTCCCCATCTCTCCTTAAAA+AGG - chr3.2:77493277-77493296 None:intergenic 45.0%
GAGATCATGTCGAGGAATCT+TGG + chr3.2:77493972-77493991 MS.gene057194:CDS 45.0%
GATATCGTTGTACCTCACCT+TGG - chr3.2:77493864-77493883 None:intergenic 45.0%
GGTGAGGTACAACGATATCT+AGG + chr3.2:77493865-77493884 MS.gene057194:CDS 45.0%
TTATATCACACGGCTGCGTT+TGG - chr3.2:77494046-77494065 None:intergenic 45.0%
!! CTTTTTAAGGAGAGATGGGG+AGG + chr3.2:77493275-77493294 MS.gene057194:CDS 45.0%
!!! GCTGCTTTTTATGCTCCTCT+TGG + chr3.2:77493305-77493324 MS.gene057194:CDS 45.0%
CAAGATCGATGCGATCGAGT+TGG + chr3.2:77493359-77493378 MS.gene057194:CDS 50.0%
GCTGAAGAGAGATCATGTCG+AGG + chr3.2:77493964-77493983 MS.gene057194:CDS 50.0%
!! GGTGTTGGCTTCCTCTTACT+TGG + chr3.2:77493632-77493651 MS.gene057194:intron 50.0%
!! TGACCATAGAGCATTGTCCG+AGG - chr3.2:77493252-77493271 None:intergenic 50.0%
TGGCCTCGGACAATGCTCTA+TGG + chr3.2:77493246-77493265 MS.gene057194:CDS 55.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 77493245 77494065 77493245 ID=MS.gene057194
chr3.2 mRNA 77493245 77494065 77493245 ID=MS.gene057194.t1;Parent=MS.gene057194
chr3.2 exon 77493245 77493384 77493245 ID=MS.gene057194.t1.exon1;Parent=MS.gene057194.t1
chr3.2 CDS 77493245 77493384 77493245 ID=cds.MS.gene057194.t1;Parent=MS.gene057194.t1
chr3.2 exon 77493816 77494065 77493816 ID=MS.gene057194.t1.exon2;Parent=MS.gene057194.t1
chr3.2 CDS 77493816 77494065 77493816 ID=cds.MS.gene057194.t1;Parent=MS.gene057194.t1
Gene Sequence

>MS.gene057194

ATGGCCTCGGACAATGCTCTATGGTCAAACCTTTTTAAGGAGAGATGGGGAGGAGATCATGCTGCTTTTTATGCTCCTCTTGGTTCAAAATCATGGAAAGAAGTGTATGAGGCGCAAGATCGATGCGATCGAGTTGGATTGTAAGTTCTTTAGTTTACTCTGCTGAGAGTAGTACGGCATGCACAAGCACACATATATATTCATATTTCATCTTAAATGCCATGATTATTGAAGGAGATTTTGCTTTATCTTGCCTAATCACACGCTTGCAATTATTCTTGTCCCTTGAGATGGCGTGAAAATTATTAATTAATAATAATTTTGGCTTCCCATATTTTTTTTCTTCTAAAACAACATAATTGCTAATTTCTGCACACTTATAACATTGGTGTTGGCTTCCTCTTACTTGGATTTGCTTTAGATCTAGCATGAACCATATTCAACATAACAAATTATTGTCTCAAAACTTTGCTGACAGACATTAGTAAAATAAAGTCTGCAGTCTTACAATAGAAAGTCTTATTGAACTCTGACACAAAGGGAATGACTTTTTTAATTCTTCACAAAATAGGGGTTTGAAGATTGTTAGAGAAGGAAGTGACTACTATCTTGTTCACCAAGGTGAGGTACAACGATATCTAGGTTCAAGAAAAAATCGGCGACAAGTATCTGGTCATACTTCTAGTTCAGAAACAGACTTCACTGGAGAAAGTTCTGTAGCTGAAGAGAGATCATGTCGAGGAATCTTGGACAAAATTCTTTTTTTCATTGGGGATTTGGAAGCTGCTTCTGTTGATGCCAAACGCAGCCGTGTGATATAA

Protein sequence

>MS.gene057194.t1

MASDNALWSNLFKERWGGDHAAFYAPLGSKSWKEVYEAQDRCDRVGLGLKIVREGSDYYLVHQGEVQRYLGSRKNRRQVSGHTSSSETDFTGESSVAEERSCRGILDKILFFIGDLEAASVDAKRSRVI