AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene54910

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene54910.t1 MTR_4g039380 78.632 117 25 0 1 117 1 117 1.01e-57 174
MS.gene54910.t1 MTR_4g039340 76.336 131 17 2 1 117 1 131 8.14e-56 170
MS.gene54910.t1 MTR_4g039640 72.650 117 32 0 1 117 1 117 1.82e-45 143
MS.gene54910.t1 MTR_4g039400 40.171 117 35 1 1 117 1 82 3.32e-14 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 20 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCACTCATCTGGTGTATA+AGG 0.223072 4.4:-66218032 None:intergenic
TGTGGTTGAGGCTGGTTATT+TGG 0.223810 4.4:-66217828 None:intergenic
CTCGATTCTAATATATAATC+TGG 0.322005 4.4:-66217789 None:intergenic
GTGGTGGAGCCGGTGCATTT+TGG 0.359073 4.4:-66217932 None:intergenic
AGGTCAAAATCACGAACATT+AGG 0.392346 4.4:-66218002 None:intergenic
CTCACTCATCTGGTGTATAA+GGG 0.433158 4.4:-66218031 None:intergenic
TGAGGCTGGTTATTTGGTGG+TGG 0.452210 4.4:-66217822 None:intergenic
GGAGGCTGGTTTAAGTCAAA+TGG 0.457633 4.4:-66217981 None:intergenic
GGTTGAGGCTGGTTATTTGG+TGG 0.492897 4.4:-66217825 None:intergenic
CTGGTGTATAAGGGAGATTA+AGG 0.499975 4.4:-66218022 None:intergenic
AATCACGAACATTAGGAGGC+TGG 0.541825 4.4:-66217995 None:intergenic
ACTGCTAAAGCTTGTGGAGA+TGG 0.545041 4.4:-66217744 None:intergenic
AAGTCAAATGGCTGCACATG+TGG 0.555104 4.4:-66217969 None:intergenic
AATGGCTGCACATGTGGAGG+TGG 0.555990 4.4:-66217963 None:intergenic
ACATGCACTGCTAAAGCTTG+TGG 0.565788 4.4:-66217750 None:intergenic
TCAAAATCACGAACATTAGG+AGG 0.598365 4.4:-66217999 None:intergenic
ACATCAACACCAAAATGCAC+CGG 0.630120 4.4:+66217923 MS.gene54910:CDS
ATATTAGAATCGAGTAAACA+AGG 0.666840 4.4:+66217798 MS.gene54910:CDS
TCAAATGGCTGCACATGTGG+AGG 0.676298 4.4:-66217966 None:intergenic
TCAAAGTTAGAATTCATATG+CGG 0.712015 4.4:+66217702 MS.gene54910:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTAGAATCGAGTAAACA+AGG + chr4.4:66217798-66217817 MS.gene54910:CDS 25.0%
! CTCGATTCTAATATATAATC+TGG - chr4.4:66217792-66217811 None:intergenic 25.0%
! TCAAAGTTAGAATTCATATG+CGG + chr4.4:66217702-66217721 MS.gene54910:CDS 25.0%
AGGTCAAAATCACGAACATT+AGG - chr4.4:66218005-66218024 None:intergenic 35.0%
TCAAAATCACGAACATTAGG+AGG - chr4.4:66218002-66218021 None:intergenic 35.0%
! TGTTGATGTTCAGCATTTTG+TGG - chr4.4:66217912-66217931 None:intergenic 35.0%
ACATCAACACCAAAATGCAC+CGG + chr4.4:66217923-66217942 MS.gene54910:CDS 40.0%
CTGGTGTATAAGGGAGATTA+AGG - chr4.4:66218025-66218044 None:intergenic 40.0%
! TGTTCAGCATTTTGTGGTTG+AGG - chr4.4:66217843-66217862 None:intergenic 40.0%
!! GGTTGATGTTCAGCATTTTG+TGG - chr4.4:66217849-66217868 None:intergenic 40.0%
AAGTCAAATGGCTGCACATG+TGG - chr4.4:66217972-66217991 None:intergenic 45.0%
AATCACGAACATTAGGAGGC+TGG - chr4.4:66217998-66218017 None:intergenic 45.0%
ACATGCACTGCTAAAGCTTG+TGG - chr4.4:66217753-66217772 None:intergenic 45.0%
ACTGCTAAAGCTTGTGGAGA+TGG - chr4.4:66217747-66217766 None:intergenic 45.0%
! GGTCTAGCTAGTGCATTTTG+TGG - chr4.4:66217870-66217889 None:intergenic 45.0%
! TGTGGTTGAGGCTGGTTATT+TGG - chr4.4:66217831-66217850 None:intergenic 45.0%
!! GGAGGCTGGTTTAAGTCAAA+TGG - chr4.4:66217984-66218003 None:intergenic 45.0%
TCAAATGGCTGCACATGTGG+AGG - chr4.4:66217969-66217988 None:intergenic 50.0%
! CAGCATTTTGTGGTTGAGGC+TGG - chr4.4:66217839-66217858 None:intergenic 50.0%
! GGTTGAGGCTGGTTATTTGG+TGG - chr4.4:66217828-66217847 None:intergenic 50.0%
! TGAGGCTGGTTATTTGGTGG+TGG - chr4.4:66217825-66217844 None:intergenic 50.0%
! TGTGGAGGTGGTGCATTTTG+TGG - chr4.4:66217954-66217973 None:intergenic 50.0%
AATGGCTGCACATGTGGAGG+TGG - chr4.4:66217966-66217985 None:intergenic 55.0%
! GGAGGTGGTGCATTTTGTGG+TGG - chr4.4:66217951-66217970 None:intergenic 55.0%
!! GGTGCATTTTGTGGTGGAGC+CGG - chr4.4:66217945-66217964 None:intergenic 55.0%
!! GTGGTGGAGCCGGTGCATTT+TGG - chr4.4:66217935-66217954 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 66217699 66218052 66217699 ID=MS.gene54910
chr4.4 mRNA 66217699 66218052 66217699 ID=MS.gene54910.t1;Parent=MS.gene54910
chr4.4 exon 66217699 66218052 66217699 ID=MS.gene54910.t1.exon1;Parent=MS.gene54910.t1
chr4.4 CDS 66217699 66218052 66217699 ID=cds.MS.gene54910.t1;Parent=MS.gene54910.t1
Gene Sequence

>MS.gene54910

ATGTCAAAGTTAGAATTCATATGCGGTGAATGTGACACAATGTTTCCATCTCCACAAGCTTTAGCAGTGCATGTTATCGAAGAACATTATCCAGATTATATATTAGAATCGAGTAAACAAGGTCCACCACCAAATAACCAGCCTCAACCACAAAATGCTGAACATCAACCACAAAATGCACTAGCTAGACCACAAAATGCTGAACATCAACCACAAAATGCTGAACATCAACACCAAAATGCACCGGCTCCACCACAAAATGCACCACCTCCACATGTGCAGCCATTTGACTTAAACCAGCCTCCTAATGTTCGTGATTTTGACCTTAATCTCCCTTATACACCAGATGAGTGA
Protein sequence

>MS.gene54910.t1

MSKLEFICGECDTMFPSPQALAVHVIEEHYPDYILESSKQGPPPNNQPQPQNAEHQPQNALARPQNAEHQPQNAEHQHQNAPAPPQNAPPPHVQPFDLNQPPNVRDFDLNLPYTPDE