AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1354860


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1354860 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1354860 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1354860 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1354860 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
Msa1354860 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 tig0014543:-570376 Msa1354860:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0014543:-570480 Msa1354860:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0014543:+570334 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0014543:+570386 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0014543:-570340 Msa1354860:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0014543:-570364 Msa1354860:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0014543:-570344 Msa1354860:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0014543:+570394 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0014543:+570468 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0014543:+570485 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0014543:-570464 Msa1354860:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0014543:-570293 Msa1354860:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0014543:-570326 Msa1354860:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0014543:-570304 Msa1354860:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + tig0014543:570392-570411 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - tig0014543:570399-570418 Msa1354860:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + tig0014543:570293-570312 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - tig0014543:570334-570353 Msa1354860:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + tig0014543:570349-570368 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + tig0014543:570372-570391 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + tig0014543:570373-570392 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + tig0014543:570384-570403 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - tig0014543:570431-570450 Msa1354860:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + tig0014543:570444-570463 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - tig0014543:570449-570468 Msa1354860:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - tig0014543:570295-570314 Msa1354860:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + tig0014543:570310-570329 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - tig0014543:570311-570330 Msa1354860:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + tig0014543:570370-570389 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + tig0014543:570371-570390 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - tig0014543:570411-570430 Msa1354860:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - tig0014543:570435-570454 Msa1354860:intron 35.0%
GCATATTTACAATATCGACG+TGG - tig0014543:570471-570490 Msa1354860:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - tig0014543:570482-570501 Msa1354860:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
tig0014543 gene 570288 570509 570288 ID=Msa1354860;Name=Msa1354860
tig0014543 mRNA 570288 570509 570288 ID=Msa1354860-mRNA-1;Parent=Msa1354860;Name=Msa1354860-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
tig0014543 exon 570465 570509 570465 ID=Msa1354860-mRNA-1:exon:9267;Parent=Msa1354860-mRNA-1
tig0014543 exon 570288 570436 570288 ID=Msa1354860-mRNA-1:exon:9266;Parent=Msa1354860-mRNA-1
tig0014543 five_prime_UTR 570465 570509 570465 ID=Msa1354860-mRNA-1:five_prime_utr;Parent=Msa1354860-mRNA-1
tig0014543 five_prime_UTR 570399 570436 570399 ID=Msa1354860-mRNA-1:five_prime_utr;Parent=Msa1354860-mRNA-1
tig0014543 CDS 570288 570398 570288 ID=Msa1354860-mRNA-1:cds;Parent=Msa1354860-mRNA-1
Gene Sequence

>Msa1354860

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1354860

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI