AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021927.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021927.01.T01 MTR_4g078840 96.203 79 3 0 1 79 1 79 9.59e-49 149
MsG0480021927.01.T01 MTR_2g090695 72.727 77 21 0 3 79 2 78 4.33e-29 99.4
MsG0480021927.01.T01 MTR_2g015540 55.405 74 33 0 6 79 7 80 9.03e-26 90.9
MsG0480021927.01.T01 MTR_4g079680 54.930 71 32 0 9 79 7 77 4.45e-24 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021927.01.T01 AT2G20562 61.972 71 27 0 9 79 3 73 2.75e-21 79.3
MsG0480021927.01.T01 AT2G31090 60.563 71 28 0 9 79 5 75 3.41e-20 76.6

Find 16 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTATAGGTGCCATTATT+TGG 0.130092 4:-66067498 MsG0480021927.01.T01:CDS
TTAACAAAATTCCTTGTTAG+AGG 0.284855 4:-66067231 None:intergenic
AGACCTTTGGGTTTCTTCAT+TGG 0.312975 4:-66067553 MsG0480021927.01.T01:CDS
GCTTGATGTTGCTGTATGTT+TGG 0.367654 4:-66067287 MsG0480021927.01.T01:CDS
TTCCAGTTAGAATTCTTAGA+TGG 0.387506 4:-66067258 MsG0480021927.01.T01:CDS
AACCATCTAAGAATTCTAAC+TGG 0.391220 4:+66067256 None:intergenic
GGTGCCATTATTTGGATTCT+CGG 0.429725 4:-66067490 MsG0480021927.01.T01:CDS
ATTAATGATAATAGAGCAAA+GGG 0.435160 4:+66067526 None:intergenic
GTGCCATTATTTGGATTCTC+GGG 0.441384 4:-66067489 MsG0480021927.01.T01:intron
ATACCCGAGAATCCAAATAA+TGG 0.476544 4:+66067486 None:intergenic
CCTTGTTGCATATGCTGCAC+AGG 0.484811 4:-66067313 MsG0480021927.01.T01:CDS
GTCTACATTCACAAAAGTCT+TGG 0.513894 4:+66067572 None:intergenic
AATTAATGATAATAGAGCAA+AGG 0.578873 4:+66067525 None:intergenic
CCTGTGCAGCATATGCAACA+AGG 0.629974 4:+66067313 None:intergenic
ATAGTACTTATCCTCTAACA+AGG 0.686710 4:+66067220 None:intergenic
AATCCAATGAAGAAACCCAA+AGG 0.693801 4:+66067550 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCATTAATTTTATCTCTTAT+AGG - Chr4:66067306-66067325 MsG0480021927.01.T01:CDS 15.0%
!! AATACTACAAACATAGAAAA+TGG + Chr4:66067383-66067402 None:intergenic 20.0%
!! AATTAATGATAATAGAGCAA+AGG + Chr4:66067295-66067314 None:intergenic 20.0%
!! ATACTACAAACATAGAAAAT+GGG + Chr4:66067382-66067401 None:intergenic 20.0%
!! ATTAATGATAATAGAGCAAA+GGG + Chr4:66067294-66067313 None:intergenic 20.0%
!!! TGTTCATCTTCTTTTATTAT+AGG - Chr4:66067460-66067479 MsG0480021927.01.T01:intron 20.0%
AACCATCTAAGAATTCTAAC+TGG + Chr4:66067564-66067583 None:intergenic 30.0%
TTCCAGTTAGAATTCTTAGA+TGG - Chr4:66067559-66067578 MsG0480021927.01.T01:CDS 30.0%
! TTTTGTGAATGTAGACCTTT+GGG - Chr4:66067252-66067271 MsG0480021927.01.T01:CDS 30.0%
AATCCAATGAAGAAACCCAA+AGG + Chr4:66067270-66067289 None:intergenic 35.0%
ATACCCGAGAATCCAAATAA+TGG + Chr4:66067334-66067353 None:intergenic 35.0%
GTCTACATTCACAAAAGTCT+TGG + Chr4:66067248-66067267 None:intergenic 35.0%
! CTTTTGTGAATGTAGACCTT+TGG - Chr4:66067251-66067270 MsG0480021927.01.T01:CDS 35.0%
!! CTCTTATAGGTGCCATTATT+TGG - Chr4:66067319-66067338 MsG0480021927.01.T01:CDS 35.0%
GCTTGATGTTGCTGTATGTT+TGG - Chr4:66067530-66067549 MsG0480021927.01.T01:CDS 40.0%
! AGACCTTTGGGTTTCTTCAT+TGG - Chr4:66067264-66067283 MsG0480021927.01.T01:CDS 40.0%
! GTGCCATTATTTGGATTCTC+GGG - Chr4:66067328-66067347 MsG0480021927.01.T01:CDS 40.0%
!! GGTGCCATTATTTGGATTCT+CGG - Chr4:66067327-66067346 MsG0480021927.01.T01:CDS 40.0%
CCTGTGCAGCATATGCAACA+AGG + Chr4:66067507-66067526 None:intergenic 50.0%
CCTTGTTGCATATGCTGCAC+AGG - Chr4:66067504-66067523 MsG0480021927.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 66067234 66067605 66067234 ID=MsG0480021927.01;Name=MsG0480021927.01
Chr4 mRNA 66067234 66067605 66067234 ID=MsG0480021927.01.T01;Parent=MsG0480021927.01;Name=MsG0480021927.01.T01;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|2|0|79
Chr4 exon 66067234 66067357 66067234 ID=MsG0480021927.01.T01:exon:20826;Parent=MsG0480021927.01.T01
Chr4 exon 66067490 66067605 66067490 ID=MsG0480021927.01.T01:exon:20825;Parent=MsG0480021927.01.T01
Chr4 CDS 66067490 66067605 66067490 ID=MsG0480021927.01.T01:cds;Parent=MsG0480021927.01.T01
Chr4 CDS 66067234 66067357 66067234 ID=MsG0480021927.01.T01:cds;Parent=MsG0480021927.01.T01
Gene Sequence

>MsG0480021927.01.T01

ATGGCAAGTGACCAAGACTTTTGTGAATGTAGACCTTTGGGTTTCTTCATTGGATTACCCTTTGCTCTATTATCATTAATTTTATCTCTTATAGGTGCCATTATTTGGATTCTCGGGTCAATATTGAGTTGCTGCTGTCCTTGTTGCATATGCTGCACAGGATTGCTTGATGTTGCTGTATGTTTGGTAAAGCTTCCAGTTAGAATTCTTAGATGGTTTGTTAACAAAATTCCTTGTTAG

Protein sequence

>MsG0480021927.01.T01

MASDQDFCECRPLGFFIGLPFALLSLILSLIGAIIWILGSILSCCCPCCICCTGLLDVAVCLVKLPVRILRWFVNKIPC*