AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046560.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046560.01.T01 MTR_4g110100 62.443 221 37 2 17 192 63 282 4.29e-78 239
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 47 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAGTTTAAGTTTCGATTT+AGG 0.208807 8:+74915269 MsG0880046560.01.T01:CDS
ACAGTTTAAGTTTCGATTTA+GGG 0.277887 8:+74915270 MsG0880046560.01.T01:CDS
GTTACTATGTTGAGGGTAGA+TGG 0.329877 8:+74915775 MsG0880046560.01.T01:CDS
TCGTTTAACGATTGATGAAT+TGG 0.332153 8:-74915236 None:intergenic
TTTGATGATAGGGAAATTCT+TGG 0.340057 8:+74915628 MsG0880046560.01.T01:CDS
ATTCTTGGTTTGATGTTTGC+TGG 0.360137 8:+74915643 MsG0880046560.01.T01:CDS
AGTAACAATAGGTCTGTTAA+TGG 0.366047 8:+74915681 MsG0880046560.01.T01:CDS
GATCTAGAAACCGTAATATC+AGG 0.385009 8:-74915356 None:intergenic
TTTGAGTGGGAGGAAGTTGA+TGG 0.386369 8:+74915598 MsG0880046560.01.T01:CDS
ATGGTGGTGGCTTTGATGAT+AGG 0.400699 8:+74915617 MsG0880046560.01.T01:CDS
TGTAATTGAGGAAGAAGAAT+CGG 0.405805 8:+74915514 MsG0880046560.01.T01:intron
ACAATACGTAAACCGTCAAT+TGG 0.423490 8:-74915383 None:intergenic
TCAAAATCCTCGTAAATTTG+AGG 0.425794 8:-74915580 None:intergenic
GATGACGAAACAGTAACAAT+AGG 0.447360 8:+74915670 MsG0880046560.01.T01:CDS
AGATTGTTTCAACGCGTTGT+TGG 0.447661 8:-74915157 None:intergenic
TGGGAGGAAGTTGATGGTGG+TGG 0.457851 8:+74915604 MsG0880046560.01.T01:CDS
GAAACTTAAACTGTCGAAAA+CGG 0.459293 8:-74915261 None:intergenic
TTGGGATTCGCTTCAGTTGG+AGG 0.465065 8:+74915552 MsG0880046560.01.T01:CDS
TCGTTGGGATTCGCTTCAGT+TGG 0.470738 8:+74915549 MsG0880046560.01.T01:CDS
AGAAGAGGTTACTATGTTGA+GGG 0.481328 8:+74915768 MsG0880046560.01.T01:CDS
TCTAGATCTGATCCAATTGA+CGG 0.487333 8:+74915371 MsG0880046560.01.T01:CDS
GAGAAGAGGTTAACATGATG+AGG 0.499839 8:+74915797 MsG0880046560.01.T01:CDS
AAAACACACGAGGAAGAAGA+TGG 0.501209 8:+74915745 MsG0880046560.01.T01:CDS
GAGTGGGAGGAAGTTGATGG+TGG 0.503222 8:+74915601 MsG0880046560.01.T01:CDS
GAGAAGAGGTTACTATGTTG+AGG 0.509668 8:+74915767 MsG0880046560.01.T01:CDS
TTCTCGCGAGAATTGTGTGA+TGG 0.524616 8:+74915128 None:intergenic
GTTAACATGATGAGGGTTGG+TGG 0.530615 8:+74915805 MsG0880046560.01.T01:CDS
GTAATTGAGGAAGAAGAATC+GGG 0.542687 8:+74915515 MsG0880046560.01.T01:intron
TGGTGGTGGCTTTGATGATA+GGG 0.550462 8:+74915618 MsG0880046560.01.T01:CDS
GTTGAGGGTAGATGGAGAAG+AGG 0.551302 8:+74915783 MsG0880046560.01.T01:CDS
AACATGATGAGGGTTGGTGG+AGG 0.553873 8:+74915808 MsG0880046560.01.T01:CDS
GATGAGGGTTGGTGGAGGGA+CGG 0.555436 8:+74915813 MsG0880046560.01.T01:CDS
AGAAGAGGTTAACATGATGA+GGG 0.567261 8:+74915798 MsG0880046560.01.T01:CDS
CGAGGAAGAAGATGGAGAAG+AGG 0.574787 8:+74915753 MsG0880046560.01.T01:CDS
GAGGTTAACATGATGAGGGT+TGG 0.581773 8:+74915802 MsG0880046560.01.T01:CDS
GAGATTGTTCAACGCGTCGG+TGG 0.585819 8:-74915193 None:intergenic
TTTGAGATTGTTCAACGCGT+CGG 0.598654 8:-74915196 None:intergenic
TAACGATTGATGAATTGGAT+CGG 0.599577 8:-74915231 None:intergenic
GTTAATGGTGGTCGTCCTCG+CGG 0.603165 8:+74915696 MsG0880046560.01.T01:CDS
AGATCGAGATGAATGTCGGA+AGG 0.622305 8:-74915299 None:intergenic
ATTGAGATCGAGATGAATGT+CGG 0.630253 8:-74915303 None:intergenic
AACAATAGGTCTGTTAATGG+TGG 0.633442 8:+74915684 MsG0880046560.01.T01:CDS
ACATGATGAGGGTTGGTGGA+GGG 0.638721 8:+74915809 MsG0880046560.01.T01:CDS
CAAGAAGAAGAAAACACACG+AGG 0.640288 8:+74915735 MsG0880046560.01.T01:CDS
TGAAGCGAATCCCAACGAAG+AGG 0.670151 8:-74915544 None:intergenic
GGATGATCCTCAAATTTACG+AGG 0.692767 8:+74915573 MsG0880046560.01.T01:CDS
TCAATAAACGAAGTACCGCG+AGG 0.792094 8:-74915711 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGACTTTAACAATGTAATTG+AGG + Chr8:74915502-74915521 MsG0880046560.01.T01:intron 25.0%
!! ACAGTTTAAGTTTCGATTTA+GGG + Chr8:74915270-74915289 MsG0880046560.01.T01:CDS 25.0%
!! TGATGATTTTCCTGATATTA+CGG + Chr8:74915346-74915365 MsG0880046560.01.T01:CDS 25.0%
!! TTACGTATTGTTGATTGATT+CGG + Chr8:74915395-74915414 MsG0880046560.01.T01:intron 25.0%
!!! AGAAGTTGATAGAAATGAAA+CGG + Chr8:74915431-74915450 MsG0880046560.01.T01:intron 25.0%
AGTAACAATAGGTCTGTTAA+TGG + Chr8:74915681-74915700 MsG0880046560.01.T01:CDS 30.0%
GAAACTTAAACTGTCGAAAA+CGG - Chr8:74915264-74915283 None:intergenic 30.0%
TAACGATTGATGAATTGGAT+CGG - Chr8:74915234-74915253 None:intergenic 30.0%
TCAAAATCCTCGTAAATTTG+AGG - Chr8:74915583-74915602 None:intergenic 30.0%
TCGTTTAACGATTGATGAAT+TGG - Chr8:74915239-74915258 None:intergenic 30.0%
TGTAATTGAGGAAGAAGAAT+CGG + Chr8:74915514-74915533 MsG0880046560.01.T01:intron 30.0%
! AAATTTACGAGGATTTTGAG+TGG + Chr8:74915584-74915603 MsG0880046560.01.T01:CDS 30.0%
! GACAGTTTAAGTTTCGATTT+AGG + Chr8:74915269-74915288 MsG0880046560.01.T01:CDS 30.0%
! TTTGATGATAGGGAAATTCT+TGG + Chr8:74915628-74915647 MsG0880046560.01.T01:CDS 30.0%
!! AATTTACGAGGATTTTGAGT+GGG + Chr8:74915585-74915604 MsG0880046560.01.T01:CDS 30.0%
AACAATAGGTCTGTTAATGG+TGG + Chr8:74915684-74915703 MsG0880046560.01.T01:CDS 35.0%
ACAATACGTAAACCGTCAAT+TGG - Chr8:74915386-74915405 None:intergenic 35.0%
AGAAGAGGTTAACATGATGA+GGG + Chr8:74915798-74915817 MsG0880046560.01.T01:CDS 35.0%
AGAAGAGGTTACTATGTTGA+GGG + Chr8:74915768-74915787 MsG0880046560.01.T01:CDS 35.0%
ATTGAGATCGAGATGAATGT+CGG - Chr8:74915306-74915325 None:intergenic 35.0%
GATCTAGAAACCGTAATATC+AGG - Chr8:74915359-74915378 None:intergenic 35.0%
GATGACGAAACAGTAACAAT+AGG + Chr8:74915670-74915689 MsG0880046560.01.T01:CDS 35.0%
GTAATTGAGGAAGAAGAATC+GGG + Chr8:74915515-74915534 MsG0880046560.01.T01:intron 35.0%
TCTAGATCTGATCCAATTGA+CGG + Chr8:74915371-74915390 MsG0880046560.01.T01:CDS 35.0%
! ATTCTTGGTTTGATGTTTGC+TGG + Chr8:74915643-74915662 MsG0880046560.01.T01:CDS 35.0%
!! TTGATTGATTCGGATTCTGA+TGG + Chr8:74915405-74915424 MsG0880046560.01.T01:intron 35.0%
AAAACACACGAGGAAGAAGA+TGG + Chr8:74915745-74915764 MsG0880046560.01.T01:CDS 40.0%
AGATTGTTTCAACGCGTTGT+TGG - Chr8:74915160-74915179 None:intergenic 40.0%
CAAGAAGAAGAAAACACACG+AGG + Chr8:74915735-74915754 MsG0880046560.01.T01:CDS 40.0%
GAGAAGAGGTTAACATGATG+AGG + Chr8:74915797-74915816 MsG0880046560.01.T01:CDS 40.0%
GAGAAGAGGTTACTATGTTG+AGG + Chr8:74915767-74915786 MsG0880046560.01.T01:CDS 40.0%
GGATGATCCTCAAATTTACG+AGG + Chr8:74915573-74915592 MsG0880046560.01.T01:CDS 40.0%
GTTACTATGTTGAGGGTAGA+TGG + Chr8:74915775-74915794 MsG0880046560.01.T01:CDS 40.0%
! TTTGAGATTGTTCAACGCGT+CGG - Chr8:74915199-74915218 None:intergenic 40.0%
AGATCGAGATGAATGTCGGA+AGG - Chr8:74915302-74915321 None:intergenic 45.0%
GAGGTTAACATGATGAGGGT+TGG + Chr8:74915802-74915821 MsG0880046560.01.T01:CDS 45.0%
GTTAACATGATGAGGGTTGG+TGG + Chr8:74915805-74915824 MsG0880046560.01.T01:CDS 45.0%
TTTGAGTGGGAGGAAGTTGA+TGG + Chr8:74915598-74915617 MsG0880046560.01.T01:CDS 45.0%
! AACGGAGACAACGTGTTTTG+TGG + Chr8:74915449-74915468 MsG0880046560.01.T01:intron 45.0%
!! ATGGTGGTGGCTTTGATGAT+AGG + Chr8:74915617-74915636 MsG0880046560.01.T01:CDS 45.0%
!! TCAATAAACGAAGTACCGCG+AGG - Chr8:74915714-74915733 None:intergenic 45.0%
!! TGGTGGTGGCTTTGATGATA+GGG + Chr8:74915618-74915637 MsG0880046560.01.T01:CDS 45.0%
!! TTACGAGGATTTTGAGTGGG+AGG + Chr8:74915588-74915607 MsG0880046560.01.T01:CDS 45.0%
CGAGGAAGAAGATGGAGAAG+AGG + Chr8:74915753-74915772 MsG0880046560.01.T01:CDS 50.0%
GTTGAGGGTAGATGGAGAAG+AGG + Chr8:74915783-74915802 MsG0880046560.01.T01:CDS 50.0%
TCGTTGGGATTCGCTTCAGT+TGG + Chr8:74915549-74915568 MsG0880046560.01.T01:CDS 50.0%
TGAAGCGAATCCCAACGAAG+AGG - Chr8:74915547-74915566 None:intergenic 50.0%
TTGGGATTCGCTTCAGTTGG+AGG + Chr8:74915552-74915571 MsG0880046560.01.T01:CDS 50.0%
! CGGGAGTTTTCCTCTTCGTT+GGG + Chr8:74915534-74915553 MsG0880046560.01.T01:CDS 50.0%
! TCGGGAGTTTTCCTCTTCGT+TGG + Chr8:74915533-74915552 MsG0880046560.01.T01:CDS 50.0%
!! AACATGATGAGGGTTGGTGG+AGG + Chr8:74915808-74915827 MsG0880046560.01.T01:CDS 50.0%
!! ACATGATGAGGGTTGGTGGA+GGG + Chr8:74915809-74915828 MsG0880046560.01.T01:CDS 50.0%
GAGATTGTTCAACGCGTCGG+TGG - Chr8:74915196-74915215 None:intergenic 55.0%
GTTAATGGTGGTCGTCCTCG+CGG + Chr8:74915696-74915715 MsG0880046560.01.T01:CDS 55.0%
!! GAGTGGGAGGAAGTTGATGG+TGG + Chr8:74915601-74915620 MsG0880046560.01.T01:CDS 55.0%
!! TGGGAGGAAGTTGATGGTGG+TGG + Chr8:74915604-74915623 MsG0880046560.01.T01:CDS 55.0%
!! GATGAGGGTTGGTGGAGGGA+CGG + Chr8:74915813-74915832 MsG0880046560.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 74915140 74915861 74915140 ID=MsG0880046560.01;Name=MsG0880046560.01
Chr8 mRNA 74915140 74915861 74915140 ID=MsG0880046560.01.T01;Parent=MsG0880046560.01;Name=MsG0880046560.01.T01;_AED=0.44;_eAED=0.46;_QI=0|0|0|1|1|1|2|0|196
Chr8 exon 74915140 74915392 74915140 ID=MsG0880046560.01.T01:exon:31357;Parent=MsG0880046560.01.T01
Chr8 exon 74915524 74915861 74915524 ID=MsG0880046560.01.T01:exon:31358;Parent=MsG0880046560.01.T01
Chr8 CDS 74915140 74915392 74915140 ID=MsG0880046560.01.T01:cds;Parent=MsG0880046560.01.T01
Chr8 CDS 74915524 74915861 74915524 ID=MsG0880046560.01.T01:cds;Parent=MsG0880046560.01.T01
Gene Sequence

>MsG0880046560.01.T01

TTGTGTGATGGATCTTTCCAACAACGCGTTGAAACAATCTCAAAATTACTAATCCACCGACGCGTTGAACAATCTCAAATTACTAATCACACCGATCCAATTCATCAATCGTTAAACGACTCCGTTTTCGACAGTTTAAGTTTCGATTTAGGGTTCAATCCTTCCGACATTCATCTCGATCTCAATATCGCTGCTGAAGAAGATGATGATGATTTTCCTGATATTACGGTTTCTAGATCTGATCCAATTGACGGAAGAAGAATCGGGAGTTTTCCTCTTCGTTGGGATTCGCTTCAGTTGGAGGATGATCCTCAAATTTACGAGGATTTTGAGTGGGAGGAAGTTGATGGTGGTGGCTTTGATGATAGGGAAATTCTTGGTTTGATGTTTGCTGGTGATGATGACGAAACAGTAACAATAGGTCTGTTAATGGTGGTCGTCCTCGCGGTACTTCGTTTATTGAACAAGAAGAAGAAAACACACGAGGAAGAAGATGGAGAAGAGGTTACTATGTTGAGGGTAGATGGAGAAGAGGTTAACATGATGAGGGTTGGTGGAGGGACGGAAAATCTTGATTGCAAGTTTTGTTGA

Protein sequence

>MsG0880046560.01.T01

LCDGSFQQRVETISKLLIHRRVEQSQITNHTDPIHQSLNDSVFDSLSFDLGFNPSDIHLDLNIAAEEDDDDFPDITVSRSDPIDGRRIGSFPLRWDSLQLEDDPQIYEDFEWEEVDGGGFDDREILGLMFAGDDDETVTIGLLMVVVLAVLRLLNKKKKTHEEEDGEEVTMLRVDGEEVNMMRVGGGTENLDCKFC*