AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086640


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086640 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086640 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086640 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086640 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
Msa1086640 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:-87493269 Msa1086640:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:-87493373 Msa1086640:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:+87493227 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:+87493279 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:-87493233 Msa1086640:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:-87493257 Msa1086640:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:-87493237 Msa1086640:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:+87493287 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:+87493361 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:+87493378 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:-87493357 Msa1086640:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:-87493186 Msa1086640:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:-87493219 Msa1086640:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:-87493197 Msa1086640:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr7_2:87493285-87493304 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr7_2:87493292-87493311 Msa1086640:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr7_2:87493186-87493205 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr7_2:87493227-87493246 Msa1086640:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr7_2:87493242-87493261 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr7_2:87493265-87493284 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr7_2:87493266-87493285 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr7_2:87493277-87493296 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr7_2:87493324-87493343 Msa1086640:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr7_2:87493337-87493356 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr7_2:87493342-87493361 Msa1086640:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr7_2:87493188-87493207 Msa1086640:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr7_2:87493203-87493222 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr7_2:87493204-87493223 Msa1086640:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr7_2:87493263-87493282 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr7_2:87493264-87493283 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr7_2:87493304-87493323 Msa1086640:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr7_2:87493328-87493347 Msa1086640:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr7_2:87493364-87493383 Msa1086640:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr7_2:87493375-87493394 Msa1086640:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87493181 87493402 87493181 ID=Msa1086640;Name=Msa1086640
chr7_2 mRNA 87493181 87493402 87493181 ID=Msa1086640-mRNA-1;Parent=Msa1086640;Name=Msa1086640-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87493358 87493402 87493358 ID=Msa1086640-mRNA-1:exon:23912;Parent=Msa1086640-mRNA-1
chr7_2 exon 87493181 87493329 87493181 ID=Msa1086640-mRNA-1:exon:23911;Parent=Msa1086640-mRNA-1
chr7_2 five_prime_UTR 87493358 87493402 87493358 ID=Msa1086640-mRNA-1:five_prime_utr;Parent=Msa1086640-mRNA-1
chr7_2 five_prime_UTR 87493292 87493329 87493292 ID=Msa1086640-mRNA-1:five_prime_utr;Parent=Msa1086640-mRNA-1
chr7_2 CDS 87493181 87493291 87493181 ID=Msa1086640-mRNA-1:cds;Parent=Msa1086640-mRNA-1
Gene Sequence

>Msa1086640

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086640

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI