AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014876.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014876.01.T01 MTR_3g465570 90.000 80 7 1 8 87 314 392 2.05e-46 152
MsG0380014876.01.T01 MTR_3g023830 38.961 77 46 1 15 90 184 260 1.55e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014876.01.T01 AT2G30105 64.773 88 29 1 7 92 286 373 1.02e-33 119
MsG0380014876.01.T01 AT5G07910 38.462 78 47 1 15 91 185 262 4.03e-11 57.4

Find 15 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATAGTTATTTCTGTATTA+TGG 0.188941 3:-61834420 None:intergenic
GGTCACAAATGTGGAGTATA+AGG 0.332050 3:-61834305 None:intergenic
AACTATTGATATACTTCGTC+AGG 0.413073 3:+61834435 MsG0380014876.01.T01:CDS
TTGCTTGCAGCTTTCCACCT+TGG 0.442166 3:+61834393 MsG0380014876.01.T01:CDS
CTTTGCATCTTAGTAACAAT+GGG 0.467481 3:+61834338 MsG0380014876.01.T01:CDS
CACATTTGTGACCATTATGC+AGG 0.471749 3:+61834315 MsG0380014876.01.T01:CDS
TTTCTTTCAGTTTGAAGGAT+GGG 0.479136 3:+61834561 MsG0380014876.01.T01:intron
AAGATGCAAAGCCTGCATAA+TGG 0.530896 3:-61834326 None:intergenic
TTCTGTATTATGGAGATCCA+AGG 0.552344 3:-61834410 None:intergenic
GTTTCTGATGCTTTGAGCGA+CGG 0.553617 3:-61834600 None:intergenic
GCTTTGCATCTTAGTAACAA+TGG 0.556237 3:+61834337 MsG0380014876.01.T01:CDS
AAACAAATAGAATTCCGAGT+TGG 0.580256 3:+61834619 MsG0380014876.01.T01:CDS
CTGCATAATGGTCACAAATG+TGG 0.640523 3:-61834314 None:intergenic
AATCTCTAGAAACTCCAACT+CGG 0.645232 3:-61834633 None:intergenic
TGTATTATGGAGATCCAAGG+TGG 0.659626 3:-61834407 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAATAGTTATTTCTGTATTA+TGG - Chr3:61834423-61834442 None:intergenic 20.0%
!!! AAGTGTTGCATTTTAATTGA+AGG + Chr3:61834492-61834511 MsG0380014876.01.T01:intron 25.0%
AAACAAATAGAATTCCGAGT+TGG + Chr3:61834619-61834638 MsG0380014876.01.T01:CDS 30.0%
AACTATTGATATACTTCGTC+AGG + Chr3:61834435-61834454 MsG0380014876.01.T01:CDS 30.0%
CTTTGCATCTTAGTAACAAT+GGG + Chr3:61834338-61834357 MsG0380014876.01.T01:CDS 30.0%
GCATGACAGTAAAATATATG+TGG + Chr3:61834537-61834556 MsG0380014876.01.T01:intron 30.0%
TTTCTTTCAGTTTGAAGGAT+GGG + Chr3:61834561-61834580 MsG0380014876.01.T01:intron 30.0%
! TTTTCTTTCAGTTTGAAGGA+TGG + Chr3:61834560-61834579 MsG0380014876.01.T01:intron 30.0%
!! GTTTCTAGAGATTTTGATGA+AGG + Chr3:61834643-61834662 MsG0380014876.01.T01:CDS 30.0%
!!! CAAGTCTTGAATAGTTTTGA+TGG - Chr3:61834376-61834395 None:intergenic 30.0%
GCTTTGCATCTTAGTAACAA+TGG + Chr3:61834337-61834356 MsG0380014876.01.T01:CDS 35.0%
TTCTGTATTATGGAGATCCA+AGG - Chr3:61834413-61834432 None:intergenic 35.0%
! AATCTCTAGAAACTCCAACT+CGG - Chr3:61834636-61834655 None:intergenic 35.0%
! GTGGTTTTCTTTCAGTTTGA+AGG + Chr3:61834556-61834575 MsG0380014876.01.T01:intron 35.0%
AAGATGCAAAGCCTGCATAA+TGG - Chr3:61834329-61834348 None:intergenic 40.0%
CACATTTGTGACCATTATGC+AGG + Chr3:61834315-61834334 MsG0380014876.01.T01:CDS 40.0%
CTGCATAATGGTCACAAATG+TGG - Chr3:61834317-61834336 None:intergenic 40.0%
GGTCACAAATGTGGAGTATA+AGG - Chr3:61834308-61834327 None:intergenic 40.0%
TGTATTATGGAGATCCAAGG+TGG - Chr3:61834410-61834429 None:intergenic 40.0%
! GTTTCTGATGCTTTGAGCGA+CGG - Chr3:61834603-61834622 None:intergenic 45.0%
TTGCTTGCAGCTTTCCACCT+TGG + Chr3:61834393-61834412 MsG0380014876.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 61834289 61834681 61834289 ID=MsG0380014876.01;Name=MsG0380014876.01
Chr3 mRNA 61834289 61834681 61834289 ID=MsG0380014876.01.T01;Parent=MsG0380014876.01;Name=MsG0380014876.01.T01;_AED=0.50;_eAED=0.54;_QI=0|0|0|1|1|1|2|0|92
Chr3 exon 61834289 61834456 61834289 ID=MsG0380014876.01.T01:exon:6393;Parent=MsG0380014876.01.T01
Chr3 exon 61834571 61834681 61834571 ID=MsG0380014876.01.T01:exon:6394;Parent=MsG0380014876.01.T01
Chr3 CDS 61834289 61834456 61834289 ID=MsG0380014876.01.T01:cds;Parent=MsG0380014876.01.T01
Chr3 CDS 61834571 61834681 61834571 ID=MsG0380014876.01.T01:cds;Parent=MsG0380014876.01.T01
Gene Sequence

>MsG0380014876.01.T01

ATGCTAACTTTTCTTGCCTTATACTCCACATTTGTGACCATTATGCAGGCTTTGCATCTTAGTAACAATGGGATGAAATCTCTGCCATCAAAACTATTCAAGACTTGCTTGCAGCTTTCCACCTTGGATCTCCATAATACAGAAATAACTATTGATATACTTCGTCAGTTTGAAGGATGGGACAGTTTTGATGAGCGCCGTCGCTCAAAGCATCAGAAACAAATAGAATTCCGAGTTGGAGTTTCTAGAGATTTTGATGAAGGTGCTGATAAAAACTAA

Protein sequence

>MsG0380014876.01.T01

MLTFLALYSTFVTIMQALHLSNNGMKSLPSKLFKTCLQLSTLDLHNTEITIDILRQFEGWDSFDERRRSKHQKQIEFRVGVSRDFDEGADKN*