AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016290.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016290.01.T01 MTR_3g087190 97.596 208 5 0 1 208 1 208 1.50e-149 414
MsG0380016290.01.T01 MTR_3g079680 66.026 156 21 3 16 170 27 151 9.47e-59 182
MsG0380016290.01.T01 MTR_8g090225 56.790 81 33 2 20 99 13 92 8.81e-23 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016290.01.T01 AT4G39880 72.727 132 34 1 1 132 1 130 1.75e-61 190

Find 68 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGGGTTTAAGCCGCAAAA+TGG 0.269582 3:-81609334 MsG0380016290.01.T01:CDS
TCGAATCTGTTTGCGAGTTC+TGG 0.270288 3:-81609280 MsG0380016290.01.T01:CDS
TGCGAGTTCTGGTTCGAATC+AGG 0.295567 3:-81609269 MsG0380016290.01.T01:CDS
TGCAAAACCTGATTACAAAA+AGG 0.295568 3:-81609518 MsG0380016290.01.T01:CDS
AGCCGCAAAATGGGTATTAC+AGG 0.309367 3:-81609324 MsG0380016290.01.T01:CDS
AACACGCTTGATTTCAATCT+TGG 0.311058 3:+81609627 None:intergenic
CAGGGACGGTTTGACCGTTC+TGG 0.311213 3:-81609250 MsG0380016290.01.T01:CDS
GATTGAAATCAAGCGTGTTC+TGG 0.327858 3:-81609623 MsG0380016290.01.T01:CDS
TAAGAAGAGTTTGAATAAAC+AGG 0.389935 3:-81609425 MsG0380016290.01.T01:CDS
AGGGGAGGGTTTGATCGTTC+TGG 0.399564 3:-81609304 MsG0380016290.01.T01:CDS
TTGAACGCCCTGGTTCGAAC+CGG 0.408564 3:-81609210 MsG0380016290.01.T01:CDS
TTGACCGTTCTGGTTCGAAC+CGG 0.419451 3:-81609240 MsG0380016290.01.T01:CDS
AAGCGCCGGGGAAGAGTCAT+TGG 0.426778 3:-81609378 MsG0380016290.01.T01:CDS
ATTTCAATCTTGGAAGCTGA+TGG 0.434077 3:+81609637 None:intergenic
CCATCAGCCCGGTTCGAACC+AGG 0.437888 3:+81609202 None:intergenic
GCGAGTTCTGGTTCGAATCA+GGG 0.449121 3:-81609268 MsG0380016290.01.T01:CDS
TGTATGTCGGTGAAGGTTGT+AGG 0.452936 3:+81609682 None:intergenic
GTAGGCAGGAGAAGCTTGAT+TGG 0.456166 3:+81609700 None:intergenic
ACCAGTCCTCATGTTACTCC+AGG 0.456222 3:+81609162 None:intergenic
GTTCTGCTGCAAAGTTTCCC+TGG 0.467776 3:-81609180 MsG0380016290.01.T01:CDS
TGACCGTTCTGGTTCGAACC+GGG 0.469581 3:-81609239 MsG0380016290.01.T01:CDS
TCCTCTTCAATCTCTCGAAT+CGG 0.471084 3:+81609448 None:intergenic
AGTATTGTTGAGGAAGCGCC+GGG 0.487009 3:-81609391 MsG0380016290.01.T01:CDS
CCTGGTTCGAACCGGGCTGA+TGG 0.493822 3:-81609202 MsG0380016290.01.T01:CDS
TGAACGCCCTGGTTCGAACC+GGG 0.496297 3:-81609209 MsG0380016290.01.T01:CDS
GCAGGAGAAGCTTGATTGGT+AGG 0.500966 3:+81609704 None:intergenic
GATTCGGGTTAATCAAAAGC+GGG 0.502463 3:+81609476 None:intergenic
GTGGGTTTAAGCCGCAAAAT+GGG 0.507177 3:-81609333 MsG0380016290.01.T01:CDS
CTACGGATTCGATGTCGAAA+AGG 0.508089 3:-81609593 MsG0380016290.01.T01:CDS
AATCTTGGAAGCTGATGGAA+TGG 0.521693 3:+81609642 None:intergenic
CGGGGAAGGTTTGAACGCCC+TGG 0.529081 3:-81609220 MsG0380016290.01.T01:CDS
CTGGTAGGAGTAATGCTACT+AGG 0.531882 3:-81609144 MsG0380016290.01.T01:CDS
GAGTTTGAATAAACAGGCTA+TGG 0.532603 3:-81609419 MsG0380016290.01.T01:CDS
TTCGACATCGAATCCGTAGA+GGG 0.537808 3:+81609597 None:intergenic
CAGGGCGTTCAAACCTTCCC+CGG 0.539251 3:+81609221 None:intergenic
CCCTGGAGTAACATGAGGAC+TGG 0.545437 3:-81609163 MsG0380016290.01.T01:CDS
TAGTATTGTTGAGGAAGCGC+CGG 0.547147 3:-81609392 MsG0380016290.01.T01:CDS
CGTGTTCTGGAATCCCTCTA+CGG 0.549464 3:-81609610 MsG0380016290.01.T01:CDS
GTTCTGGTTCGAACCGGGGA+AGG 0.563380 3:-81609234 MsG0380016290.01.T01:CDS
GATTTCATGTATGTCGGTGA+AGG 0.563490 3:+81609675 None:intergenic
TGTCGGTGAAGGTTGTAGGC+AGG 0.564653 3:+81609686 None:intergenic
GGAGTAACATGAGGACTGGT+AGG 0.575261 3:-81609159 MsG0380016290.01.T01:CDS
CATCAGCCCGGTTCGAACCA+GGG 0.586597 3:+81609203 None:intergenic
AAAATGGGTATTACAGGGGA+GGG 0.587136 3:-81609318 MsG0380016290.01.T01:CDS
GAGAGCGATTTCATGTATGT+CGG 0.587586 3:+81609669 None:intergenic
GCCGCAAAATGGGTATTACA+GGG 0.593489 3:-81609323 MsG0380016290.01.T01:CDS
GACCGTTCTGGTTCGAACCG+GGG 0.600430 3:-81609238 MsG0380016290.01.T01:CDS
TCCGATTCGAGAGATTGAAG+AGG 0.601664 3:-81609449 MsG0380016290.01.T01:CDS
CAAAATGGGTATTACAGGGG+AGG 0.606255 3:-81609319 MsG0380016290.01.T01:CDS
TTTGAATAAACAGGCTATGG+CGG 0.615531 3:-81609416 MsG0380016290.01.T01:CDS
GATGAGAATAAGAACACTCG+TGG 0.616080 3:-81609352 MsG0380016290.01.T01:CDS
TCAAGCCAATGACTCTTCCC+CGG 0.618018 3:+81609373 None:intergenic
GTTCTGGTTCGAATCAGGGA+CGG 0.619690 3:-81609264 MsG0380016290.01.T01:CDS
TTGCAGCAGAACCATCAGCC+CGG 0.622044 3:+81609191 None:intergenic
GTTCGAACATTGAACATGGA+CGG 0.633586 3:-81609571 MsG0380016290.01.T01:CDS
TTTCGACATCGAATCCGTAG+AGG 0.637992 3:+81609596 None:intergenic
CCAGTCCTCATGTTACTCCA+GGG 0.639983 3:+81609163 None:intergenic
AAAGGTTCGAACATTGAACA+TGG 0.645998 3:-81609575 MsG0380016290.01.T01:CDS
ATGAGAATAAGAACACTCGT+GGG 0.659603 3:-81609351 MsG0380016290.01.T01:CDS
TATGGCGGCTAGTATTGTTG+AGG 0.660904 3:-81609401 MsG0380016290.01.T01:CDS
AGTTTCCCTGGAGTAACATG+AGG 0.671157 3:-81609168 MsG0380016290.01.T01:CDS
ATTCGGGTTAATCAAAAGCG+GGG 0.673297 3:+81609477 None:intergenic
TTCCCCGGTTCGAACCAGAA+CGG 0.681205 3:+81609236 None:intergenic
AGATTCGGGTTAATCAAAAG+CGG 0.681647 3:+81609475 None:intergenic
CCGCAAAATGGGTATTACAG+GGG 0.729401 3:-81609322 MsG0380016290.01.T01:CDS
GACGGAAAGAAGAAGAAACG+TGG 0.737712 3:-81609553 MsG0380016290.01.T01:CDS
GGAAAGAAGAAGAAACGTGG+CGG 0.756525 3:-81609550 MsG0380016290.01.T01:CDS
GTATTGTTGAGGAAGCGCCG+GGG 0.806884 3:-81609390 MsG0380016290.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TAAGAAGAGTTTGAATAAAC+AGG - Chr3:81609461-81609480 MsG0380016290.01.T01:CDS 25.0%
TGCAAAACCTGATTACAAAA+AGG - Chr3:81609368-81609387 MsG0380016290.01.T01:CDS 30.0%
! ACAAAAGCCTTTTTGTAATC+AGG + Chr3:81609378-81609397 None:intergenic 30.0%
AAAGGTTCGAACATTGAACA+TGG - Chr3:81609311-81609330 MsG0380016290.01.T01:CDS 35.0%
AACACGCTTGATTTCAATCT+TGG + Chr3:81609262-81609281 None:intergenic 35.0%
ATGAGAATAAGAACACTCGT+GGG - Chr3:81609535-81609554 MsG0380016290.01.T01:CDS 35.0%
ATTTCAATCTTGGAAGCTGA+TGG + Chr3:81609252-81609271 None:intergenic 35.0%
GAGTTTGAATAAACAGGCTA+TGG - Chr3:81609467-81609486 MsG0380016290.01.T01:CDS 35.0%
TCTCGAATCGGAAAAAGATT+CGG + Chr3:81609429-81609448 None:intergenic 35.0%
TTTGAATAAACAGGCTATGG+CGG - Chr3:81609470-81609489 MsG0380016290.01.T01:CDS 35.0%
! AGATTCGGGTTAATCAAAAG+CGG + Chr3:81609414-81609433 None:intergenic 35.0%
AAAATGGGTATTACAGGGGA+GGG - Chr3:81609568-81609587 MsG0380016290.01.T01:CDS 40.0%
AATCTTGGAAGCTGATGGAA+TGG + Chr3:81609247-81609266 None:intergenic 40.0%
CTCGAATCGGAAAAAGATTC+GGG + Chr3:81609428-81609447 None:intergenic 40.0%
GAGAGCGATTTCATGTATGT+CGG + Chr3:81609220-81609239 None:intergenic 40.0%
GATGAGAATAAGAACACTCG+TGG - Chr3:81609534-81609553 MsG0380016290.01.T01:CDS 40.0%
GATTGAAATCAAGCGTGTTC+TGG - Chr3:81609263-81609282 MsG0380016290.01.T01:CDS 40.0%
GATTTCATGTATGTCGGTGA+AGG + Chr3:81609214-81609233 None:intergenic 40.0%
GTTCGAACATTGAACATGGA+CGG - Chr3:81609315-81609334 MsG0380016290.01.T01:CDS 40.0%
TCCTCTTCAATCTCTCGAAT+CGG + Chr3:81609441-81609460 None:intergenic 40.0%
! ATTCGGGTTAATCAAAAGCG+GGG + Chr3:81609412-81609431 None:intergenic 40.0%
! GATTCGGGTTAATCAAAAGC+GGG + Chr3:81609413-81609432 None:intergenic 40.0%
AGCCGCAAAATGGGTATTAC+AGG - Chr3:81609562-81609581 MsG0380016290.01.T01:CDS 45.0%
AGTTTCCCTGGAGTAACATG+AGG - Chr3:81609718-81609737 MsG0380016290.01.T01:CDS 45.0%
CAAAATGGGTATTACAGGGG+AGG - Chr3:81609567-81609586 MsG0380016290.01.T01:CDS 45.0%
CCGCAAAATGGGTATTACAG+GGG - Chr3:81609564-81609583 MsG0380016290.01.T01:CDS 45.0%
CTACGGATTCGATGTCGAAA+AGG - Chr3:81609293-81609312 MsG0380016290.01.T01:CDS 45.0%
CTGGTAGGAGTAATGCTACT+AGG - Chr3:81609742-81609761 MsG0380016290.01.T01:CDS 45.0%
GACGGAAAGAAGAAGAAACG+TGG - Chr3:81609333-81609352 MsG0380016290.01.T01:CDS 45.0%
GCCGCAAAATGGGTATTACA+GGG - Chr3:81609563-81609582 MsG0380016290.01.T01:CDS 45.0%
GGAAAGAAGAAGAAACGTGG+CGG - Chr3:81609336-81609355 MsG0380016290.01.T01:CDS 45.0%
GTGGGTTTAAGCCGCAAAAT+GGG - Chr3:81609553-81609572 MsG0380016290.01.T01:CDS 45.0%
TATGGCGGCTAGTATTGTTG+AGG - Chr3:81609485-81609504 MsG0380016290.01.T01:CDS 45.0%
TCGAATCTGTTTGCGAGTTC+TGG - Chr3:81609606-81609625 MsG0380016290.01.T01:CDS 45.0%
TGTATGTCGGTGAAGGTTGT+AGG + Chr3:81609207-81609226 None:intergenic 45.0%
TTCGACATCGAATCCGTAGA+GGG + Chr3:81609292-81609311 None:intergenic 45.0%
TTTCGACATCGAATCCGTAG+AGG + Chr3:81609293-81609312 None:intergenic 45.0%
! CCCCTGTAATACCCATTTTG+CGG + Chr3:81609567-81609586 None:intergenic 45.0%
! TAGTATTGTTGAGGAAGCGC+CGG - Chr3:81609494-81609513 MsG0380016290.01.T01:CDS 45.0%
! TCCGATTCGAGAGATTGAAG+AGG - Chr3:81609437-81609456 MsG0380016290.01.T01:CDS 45.0%
ACCAGTCCTCATGTTACTCC+AGG + Chr3:81609727-81609746 None:intergenic 50.0%
CCAGTCCTCATGTTACTCCA+GGG + Chr3:81609726-81609745 None:intergenic 50.0%
CGTGGGTTTAAGCCGCAAAA+TGG - Chr3:81609552-81609571 MsG0380016290.01.T01:CDS 50.0%
GCAGGAGAAGCTTGATTGGT+AGG + Chr3:81609185-81609204 None:intergenic 50.0%
GTAGGCAGGAGAAGCTTGAT+TGG + Chr3:81609189-81609208 None:intergenic 50.0%
GTTCTGCTGCAAAGTTTCCC+TGG - Chr3:81609706-81609725 MsG0380016290.01.T01:CDS 50.0%
TCAAGCCAATGACTCTTCCC+CGG + Chr3:81609516-81609535 None:intergenic 50.0%
! GGAGTAACATGAGGACTGGT+AGG - Chr3:81609727-81609746 MsG0380016290.01.T01:CDS 50.0%
!! AGTATTGTTGAGGAAGCGCC+GGG - Chr3:81609495-81609514 MsG0380016290.01.T01:CDS 50.0%
!! CGTGTTCTGGAATCCCTCTA+CGG - Chr3:81609276-81609295 MsG0380016290.01.T01:CDS 50.0%
!! GCGAGTTCTGGTTCGAATCA+GGG - Chr3:81609618-81609637 MsG0380016290.01.T01:CDS 50.0%
!! GTTCTGGTTCGAATCAGGGA+CGG - Chr3:81609622-81609641 MsG0380016290.01.T01:CDS 50.0%
!! TGCGAGTTCTGGTTCGAATC+AGG - Chr3:81609617-81609636 MsG0380016290.01.T01:CDS 50.0%
!! TTGACCGTTCTGGTTCGAAC+CGG - Chr3:81609646-81609665 MsG0380016290.01.T01:CDS 50.0%
AGGGGAGGGTTTGATCGTTC+TGG - Chr3:81609582-81609601 MsG0380016290.01.T01:CDS 55.0%
CCCTGGAGTAACATGAGGAC+TGG - Chr3:81609723-81609742 MsG0380016290.01.T01:CDS 55.0%
TGTCGGTGAAGGTTGTAGGC+AGG + Chr3:81609203-81609222 None:intergenic 55.0%
TTGCAGCAGAACCATCAGCC+CGG + Chr3:81609698-81609717 None:intergenic 55.0%
! TTCCCCGGTTCGAACCAGAA+CGG + Chr3:81609653-81609672 None:intergenic 55.0%
! TTGAACGCCCTGGTTCGAAC+CGG - Chr3:81609676-81609695 MsG0380016290.01.T01:CDS 55.0%
!! GTATTGTTGAGGAAGCGCCG+GGG - Chr3:81609496-81609515 MsG0380016290.01.T01:CDS 55.0%
!! TGACCGTTCTGGTTCGAACC+GGG - Chr3:81609647-81609666 MsG0380016290.01.T01:CDS 55.0%
CAGGGACGGTTTGACCGTTC+TGG - Chr3:81609636-81609655 MsG0380016290.01.T01:CDS 60.0%
! CAGGGCGTTCAAACCTTCCC+CGG + Chr3:81609668-81609687 None:intergenic 60.0%
! CATCAGCCCGGTTCGAACCA+GGG + Chr3:81609686-81609705 None:intergenic 60.0%
! TGAACGCCCTGGTTCGAACC+GGG - Chr3:81609677-81609696 MsG0380016290.01.T01:CDS 60.0%
!! AAGCGCCGGGGAAGAGTCAT+TGG - Chr3:81609508-81609527 MsG0380016290.01.T01:CDS 60.0%
!! GACCGTTCTGGTTCGAACCG+GGG - Chr3:81609648-81609667 MsG0380016290.01.T01:CDS 60.0%
!! GTTCTGGTTCGAACCGGGGA+AGG - Chr3:81609652-81609671 MsG0380016290.01.T01:CDS 60.0%
CGGGGAAGGTTTGAACGCCC+TGG - Chr3:81609666-81609685 MsG0380016290.01.T01:CDS 65.0%
! CCATCAGCCCGGTTCGAACC+AGG + Chr3:81609687-81609706 None:intergenic 65.0%
! CCTGGTTCGAACCGGGCTGA+TGG - Chr3:81609684-81609703 MsG0380016290.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 81609141 81609767 81609141 ID=MsG0380016290.01;Name=MsG0380016290.01
Chr3 mRNA 81609141 81609767 81609141 ID=MsG0380016290.01.T01;Parent=MsG0380016290.01;Name=MsG0380016290.01.T01;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|208
Chr3 exon 81609141 81609767 81609141 ID=MsG0380016290.01.T01:exon:13784;Parent=MsG0380016290.01.T01
Chr3 CDS 81609141 81609767 81609141 ID=MsG0380016290.01.T01:cds;Parent=MsG0380016290.01.T01
Gene Sequence

>MsG0380016290.01.T01

ATGGGAAGCAGACTAGGAAGAAGAGTAGTGTACTTCGCAAACCTACCAATCAAGCTTCTCCTGCCTACAACCTTCACCGACATACATGAAATCGCTCTCAAAACCATTCCATCAGCTTCCAAGATTGAAATCAAGCGTGTTCTGGAATCCCTCTACGGATTCGATGTCGAAAAGGTTCGAACATTGAACATGGACGGAAAGAAGAAGAAACGTGGCGGAATCGTGATTGCAAAACCTGATTACAAAAAGGCTTTTGTAACGTTAAAAACCCCGCTTTTGATTAACCCGAATCTTTTTCCGATTCGAGAGATTGAAGAGGATAAGAAGAGTTTGAATAAACAGGCTATGGCGGCTAGTATTGTTGAGGAAGCGCCGGGGAAGAGTCATTGGCTTGATGAGAATAAGAACACTCGTGGGTTTAAGCCGCAAAATGGGTATTACAGGGGAGGGTTTGATCGTTCTGGTTCGAATCTGTTTGCGAGTTCTGGTTCGAATCAGGGACGGTTTGACCGTTCTGGTTCGAACCGGGGAAGGTTTGAACGCCCTGGTTCGAACCGGGCTGATGGTTCTGCTGCAAAGTTTCCCTGGAGTAACATGAGGACTGGTAGGAGTAATGCTACTAGGTAG

Protein sequence

>MsG0380016290.01.T01

MGSRLGRRVVYFANLPIKLLLPTTFTDIHEIALKTIPSASKIEIKRVLESLYGFDVEKVRTLNMDGKKKKRGGIVIAKPDYKKAFVTLKTPLLINPNLFPIREIEEDKKSLNKQAMAASIVEEAPGKSHWLDENKNTRGFKPQNGYYRGGFDRSGSNLFASSGSNQGRFDRSGSNRGRFERPGSNRADGSAAKFPWSNMRTGRSNATR*