AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83460


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83460.t1 MTR_5g026290 93.333 135 8 1 1 134 1 135 2.69e-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 18 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATTTGTACTTTGTTAATT+TGG 0.112303 5.4:+17288174 None:intergenic
CTTTGTTAATTTGGAATAAC+TGG 0.189219 5.4:+17288183 None:intergenic
TCTTTGAAGTTGCTTTCTTC+AGG 0.231770 5.4:+17288429 None:intergenic
ATGCATTGTGCAGCTTCTTA+TGG 0.341347 5.4:-17288528 MS.gene83460:CDS
AAGGGATCATCACATGAAAT+AGG 0.348210 5.4:-17288396 MS.gene83460:CDS
CTGCACAATGCATTAGTGTT+TGG 0.388403 5.4:+17288538 None:intergenic
CTTTGAAGTTGCTTTCTTCA+GGG 0.422990 5.4:+17288430 None:intergenic
GCACAAAAGCTTCACAGGTT+GGG 0.439585 5.4:-17288345 MS.gene83460:CDS
CTCAAGCACAAAAGCTTCAC+AGG 0.495602 5.4:-17288350 MS.gene83460:CDS
GCAGCTTCTTATGGTGAAAG+AGG 0.521502 5.4:-17288519 MS.gene83460:CDS
AGCACAAAAGCTTCACAGGT+TGG 0.529568 5.4:-17288346 MS.gene83460:CDS
TGCTAGTGAATCAAGGATGA+TGG 0.543307 5.4:-17288244 MS.gene83460:CDS
CCATCTCGTCGCAAAAGCTA+TGG 0.544204 5.4:-17288483 MS.gene83460:CDS
GAGATGTTGCTAGTGAATCA+AGG 0.609919 5.4:-17288251 MS.gene83460:CDS
GCTAGTGAATCAAGGATGAT+GGG 0.613297 5.4:-17288243 MS.gene83460:CDS
ATTCACTAGCAACATCTCCA+AGG 0.613391 5.4:+17288256 None:intergenic
GATGGGAATTGATGCACCAA+TGG 0.622941 5.4:-17288226 MS.gene83460:CDS
CGATGCTATTCTCTACTCGA+CGG 0.702175 5.4:+17288457 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCTTTACATAGTAATTA+AGG - chr5.4:17288457-17288476 MS.gene83460:CDS 15.0%
!! TTCAAAGAACAAAAAAACAA+GGG - chr5.4:17288344-17288363 MS.gene83460:CDS 20.0%
! ATAACTGGAACAGAAAAATA+TGG + chr5.4:17288563-17288582 None:intergenic 25.0%
! CTTCAAAGAACAAAAAAACA+AGG - chr5.4:17288343-17288362 MS.gene83460:CDS 25.0%
!!! AAGGTTAAAGCATTTTACAA+TGG - chr5.4:17288476-17288495 MS.gene83460:CDS 25.0%
AAGGGATCATCACATGAAAT+AGG - chr5.4:17288362-17288381 MS.gene83460:CDS 35.0%
! GAAAAATATGGTTCTGCCAT+TGG + chr5.4:17288551-17288570 None:intergenic 35.0%
! GCATTTTACAATGGTTTCCT+TGG - chr5.4:17288485-17288504 MS.gene83460:CDS 35.0%
!! CTTTGAAGTTGCTTTCTTCA+GGG + chr5.4:17288331-17288350 None:intergenic 35.0%
!! TCTTTGAAGTTGCTTTCTTC+AGG + chr5.4:17288332-17288351 None:intergenic 35.0%
ATGCATTGTGCAGCTTCTTA+TGG - chr5.4:17288230-17288249 MS.gene83460:CDS 40.0%
ATTCACTAGCAACATCTCCA+AGG + chr5.4:17288505-17288524 None:intergenic 40.0%
CTGCACAATGCATTAGTGTT+TGG + chr5.4:17288223-17288242 None:intergenic 40.0%
GAGATGTTGCTAGTGAATCA+AGG - chr5.4:17288507-17288526 MS.gene83460:CDS 40.0%
GCTAGTGAATCAAGGATGAT+GGG - chr5.4:17288515-17288534 MS.gene83460:CDS 40.0%
TGCTAGTGAATCAAGGATGA+TGG - chr5.4:17288514-17288533 MS.gene83460:CDS 40.0%
AGCACAAAAGCTTCACAGGT+TGG - chr5.4:17288412-17288431 MS.gene83460:CDS 45.0%
CGATGCTATTCTCTACTCGA+CGG + chr5.4:17288304-17288323 None:intergenic 45.0%
CTCAAGCACAAAAGCTTCAC+AGG - chr5.4:17288408-17288427 MS.gene83460:CDS 45.0%
GATGGGAATTGATGCACCAA+TGG - chr5.4:17288532-17288551 MS.gene83460:CDS 45.0%
GCACAAAAGCTTCACAGGTT+GGG - chr5.4:17288413-17288432 MS.gene83460:CDS 45.0%
GCAGCTTCTTATGGTGAAAG+AGG - chr5.4:17288239-17288258 MS.gene83460:CDS 45.0%
CCATCTCGTCGCAAAAGCTA+TGG - chr5.4:17288275-17288294 MS.gene83460:CDS 50.0%
! CCATAGCTTTTGCGACGAGA+TGG + chr5.4:17288278-17288297 None:intergenic 50.0%
! CTTTTGCGACGAGATGGTGT+TGG + chr5.4:17288272-17288291 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 17288188 17288592 17288188 ID=MS.gene83460
chr5.4 mRNA 17288188 17288592 17288188 ID=MS.gene83460.t1;Parent=MS.gene83460
chr5.4 exon 17288188 17288592 17288188 ID=MS.gene83460.t1.exon1;Parent=MS.gene83460.t1
chr5.4 CDS 17288188 17288592 17288188 ID=cds.MS.gene83460.t1;Parent=MS.gene83460.t1
Gene Sequence

>MS.gene83460

ATGGCTTCACAACTTGTTAGTGATGTCAAATGCCAAACACTAATGCATTGTGCAGCTTCTTATGGTGAAAGAGGAAGCAAACCAACACCATCTCGTCGCAAAAGCTATGGCTACCGTCGAGTAGAGAATAGCATCGTCTACCCTGAAGAAAGCAACTTCAAAGAACAAAAAAACAAGGGATCATCACATGAAATAGGTGTAAAACGTAACACAAATCTAGCTCAAGCACAAAAGCTTCACAGGTTGGGATTCTCTTACATTGCAACATCTTTTCTTTACATAGTAATTAAGGTTAAAGCATTTTACAATGGTTTCCTTGGAGATGTTGCTAGTGAATCAAGGATGATGGGAATTGATGCACCAATGGCAGAACCATATTTTTCTGTTCCAGTTATTCCAAATTAA

Protein sequence

>MS.gene83460.t1

MASQLVSDVKCQTLMHCAASYGERGSKPTPSRRKSYGYRRVENSIVYPEESNFKEQKNKGSSHEIGVKRNTNLAQAQKLHRLGFSYIATSFLYIVIKVKAFYNGFLGDVASESRMMGIDAPMAEPYFSVPVIPN