AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086320


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086320 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086320 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086320 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086320 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086320 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 7_2:+87314004 Msa1086320:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:+87313900 Msa1086320:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:-87314046 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:-87313994 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:+87314040 Msa1086320:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:+87314016 Msa1086320:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:+87314036 Msa1086320:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:-87313986 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:-87313912 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:-87313895 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:+87313916 Msa1086320:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:+87314087 Msa1086320:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:+87314054 Msa1086320:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:+87314076 Msa1086320:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr7_2:87313997-87314016 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr7_2:87314004-87314023 Msa1086320:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr7_2:87313898-87313917 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr7_2:87313939-87313958 Msa1086320:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr7_2:87313954-87313973 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr7_2:87313977-87313996 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr7_2:87313978-87313997 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr7_2:87313989-87314008 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr7_2:87314036-87314055 Msa1086320:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr7_2:87314049-87314068 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr7_2:87314054-87314073 Msa1086320:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr7_2:87313900-87313919 Msa1086320:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr7_2:87313915-87313934 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr7_2:87313916-87313935 Msa1086320:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr7_2:87313975-87313994 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr7_2:87313976-87313995 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr7_2:87314016-87314035 Msa1086320:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr7_2:87314040-87314059 Msa1086320:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr7_2:87314076-87314095 Msa1086320:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr7_2:87314087-87314106 Msa1086320:CDS 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87313893 87314114 87313893 ID=Msa1086320;Name=Msa1086320
chr7_2 mRNA 87313893 87314114 87313893 ID=Msa1086320-mRNA-1;Parent=Msa1086320;Name=Msa1086320-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87313893 87313937 87313893 ID=Msa1086320-mRNA-1:exon:23783;Parent=Msa1086320-mRNA-1
chr7_2 exon 87313966 87314114 87313966 ID=Msa1086320-mRNA-1:exon:23784;Parent=Msa1086320-mRNA-1
chr7_2 five_prime_UTR 87313893 87313937 87313893 ID=Msa1086320-mRNA-1:five_prime_utr;Parent=Msa1086320-mRNA-1
chr7_2 five_prime_UTR 87313966 87314003 87313966 ID=Msa1086320-mRNA-1:five_prime_utr;Parent=Msa1086320-mRNA-1
chr7_2 CDS 87314004 87314114 87314004 ID=Msa1086320-mRNA-1:cds;Parent=Msa1086320-mRNA-1
Gene Sequence

>Msa1086320

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086320

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI