AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008929.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008929.01.T01 MTR_0380s0040 97.297 74 2 0 1 74 1 74 1.07e-48 152
MsG0280008929.01.T01 MTR_2g088390 50.633 79 32 3 1 76 1 75 1.63e-13 63.9
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 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGTCAACTATATTTGAAT+TGG 0.310123 2:+41675284 None:intergenic
AAGTGATGATGCACCTTCTA+AGG 0.328196 2:-41675163 MsG0280008929.01.T01:CDS
TTAAGTTAGCTAACCTTAGA+AGG 0.356959 2:+41675150 None:intergenic
TTTCGATTATATGGCCTATT+CGG 0.364594 2:-41675204 MsG0280008929.01.T01:CDS
GAGAAGACTTACGGAGAGAA+AGG 0.405421 2:+41675493 None:intergenic
GTCTCTCTCTCAAACGCAAC+CGG 0.406208 2:-41675537 MsG0280008929.01.T01:CDS
GGTGTGTATTGAGTTCTTCT+AGG 0.406520 2:-41675587 MsG0280008929.01.T01:five_prime_UTR
TTTACAACCGTGACGACGAC+CGG 0.418943 2:+41675251 None:intergenic
CCCTTTGCTTTCGCAAGCGA+AGG 0.449180 2:+41675608 None:intergenic
GTGGAAGACAATGGCGTCAA+TGG 0.470497 2:-41675559 MsG0280008929.01.T01:exon
CCTTCGCTTGCGAAAGCAAA+GGG 0.523772 2:-41675608 MsG0280008929.01.T01:five_prime_UTR
CGATTATATGGCCTATTCGG+AGG 0.537306 2:-41675201 MsG0280008929.01.T01:CDS
AGAAGACTTACGGAGAGAAA+GGG 0.559614 2:+41675494 None:intergenic
GATTATATGGCCTATTCGGA+GGG 0.569725 2:-41675200 MsG0280008929.01.T01:CDS
CCTTTGCTTTCGCAAGCGAA+GGG 0.573384 2:+41675609 None:intergenic
TGAGTTCTTCTAGGTGCGTG+TGG 0.581956 2:-41675578 MsG0280008929.01.T01:five_prime_UTR
CCCTTCGCTTGCGAAAGCAA+AGG 0.586031 2:-41675609 MsG0280008929.01.T01:five_prime_UTR
TAGGTGCGTGTGGAAGACAA+TGG 0.719091 2:-41675568 MsG0280008929.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATTAAATACAAAGAAAA+AGG + Chr2:41675354-41675373 None:intergenic 10.0%
!! AAATTAAATACAAAGAAAAA+GGG + Chr2:41675353-41675372 None:intergenic 10.0%
!! AATTAAATACAAAGAAAAAG+GGG + Chr2:41675352-41675371 None:intergenic 15.0%
!!! CAAACAATTCAAACTTTTAT+TGG + Chr2:41675442-41675461 None:intergenic 20.0%
! AATTGTTTGTTTATGTATGC+AGG - Chr2:41675453-41675472 MsG0280008929.01.T01:intron 25.0%
!!! ATTTTTGGTATGACATAATC+CGG + Chr2:41675256-41675275 None:intergenic 25.0%
!!! TTCAAACTTTTATTGGCTTT+TGG + Chr2:41675435-41675454 None:intergenic 25.0%
CGTGTCAACTATATTTGAAT+TGG + Chr2:41675490-41675509 None:intergenic 30.0%
TTTCGATTATATGGCCTATT+CGG - Chr2:41675567-41675586 MsG0280008929.01.T01:exon 30.0%
! CGAAGATGTTTTCGATTATA+TGG - Chr2:41675558-41675577 MsG0280008929.01.T01:exon 30.0%
!!! AACTTTTATTGGCTTTTGGA+AGG + Chr2:41675431-41675450 None:intergenic 30.0%
AAGAAAAAGGGGAAGATTTG+TGG + Chr2:41675341-41675360 None:intergenic 35.0%
CAAACTCATAACCCAACATT+CGG + Chr2:41675315-41675334 None:intergenic 35.0%
! GTTGACACGAAGATATTTTC+CGG - Chr2:41675501-41675520 MsG0280008929.01.T01:intron 35.0%
AGAAGACTTACGGAGAGAAA+GGG + Chr2:41675280-41675299 None:intergenic 40.0%
CGTCACGGTTGTAAAAAAGT+TGG - Chr2:41675528-41675547 MsG0280008929.01.T01:CDS 40.0%
GAGAGAGAAGAGAAGACTTA+CGG + Chr2:41675290-41675309 None:intergenic 40.0%
GATTATATGGCCTATTCGGA+GGG - Chr2:41675571-41675590 MsG0280008929.01.T01:exon 40.0%
GGTGTGTATTGAGTTCTTCT+AGG - Chr2:41675184-41675203 MsG0280008929.01.T01:CDS 40.0%
TTCTCTCTCTTCCGAATGTT+GGG - Chr2:41675301-41675320 MsG0280008929.01.T01:intron 40.0%
! AAGTGATGATGCACCTTCTA+AGG - Chr2:41675608-41675627 MsG0280008929.01.T01:five_prime_UTR 40.0%
!! AGGTCGATTTTTGAATCGTG+TGG + Chr2:41675411-41675430 None:intergenic 40.0%
!!! ACGGAGAGAAAGGGTATTTT+TGG + Chr2:41675271-41675290 None:intergenic 40.0%
!!! CATCTTTTTTCCCTCCGAAT+AGG + Chr2:41675584-41675603 None:intergenic 40.0%
CGATTATATGGCCTATTCGG+AGG - Chr2:41675570-41675589 MsG0280008929.01.T01:exon 45.0%
CTTCTCTCTCTTCCGAATGT+TGG - Chr2:41675300-41675319 MsG0280008929.01.T01:intron 45.0%
GAGAAGACTTACGGAGAGAA+AGG + Chr2:41675281-41675300 None:intergenic 45.0%
! ATATTTTCCGGTCGTCGTCA+CGG - Chr2:41675513-41675532 MsG0280008929.01.T01:CDS 45.0%
CCTTCGCTTGCGAAAGCAAA+GGG - Chr2:41675163-41675182 MsG0280008929.01.T01:CDS 50.0%
CCTTTGCTTTCGCAAGCGAA+GGG + Chr2:41675165-41675184 None:intergenic 50.0%
GTCTCTCTCTCAAACGCAAC+CGG - Chr2:41675234-41675253 MsG0280008929.01.T01:CDS 50.0%
GTGGAAGACAATGGCGTCAA+TGG - Chr2:41675212-41675231 MsG0280008929.01.T01:CDS 50.0%
TAGGTGCGTGTGGAAGACAA+TGG - Chr2:41675203-41675222 MsG0280008929.01.T01:CDS 50.0%
TGAGTTCTTCTAGGTGCGTG+TGG - Chr2:41675193-41675212 MsG0280008929.01.T01:CDS 50.0%
TTTACAACCGTGACGACGAC+CGG + Chr2:41675523-41675542 None:intergenic 50.0%
CCCTTCGCTTGCGAAAGCAA+AGG - Chr2:41675162-41675181 MsG0280008929.01.T01:CDS 55.0%
CCCTTTGCTTTCGCAAGCGA+AGG + Chr2:41675166-41675185 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 41675155 41675638 41675155 ID=MsG0280008929.01;Name=MsG0280008929.01
Chr2 mRNA 41675155 41675638 41675155 ID=MsG0280008929.01.T01;Parent=MsG0280008929.01;Name=MsG0280008929.01.T01;_AED=0.47;_eAED=0.48;_QI=67|1|0.5|1|0|0|2|0|76
Chr2 exon 41675505 41675638 41675505 ID=MsG0280008929.01.T01:exon:29681;Parent=MsG0280008929.01.T01
Chr2 exon 41675155 41675318 41675155 ID=MsG0280008929.01.T01:exon:29682;Parent=MsG0280008929.01.T01
Chr2 five_prime_UTR 41675572 41675638 41675572 ID=MsG0280008929.01.T01:five_prime_utr;Parent=MsG0280008929.01.T01
Chr2 CDS 41675505 41675571 41675505 ID=MsG0280008929.01.T01:cds;Parent=MsG0280008929.01.T01
Chr2 CDS 41675155 41675318 41675155 ID=MsG0280008929.01.T01:cds;Parent=MsG0280008929.01.T01
Gene Sequence

>MsG0280008929.01.T01

ATGGCGTCAATGGTCTCTCTCTCAAACGCAACCGGATTATGTCATACCAAAAATACCCTTTCTCTCCGTAAACTGAACTCCAATTCAAATATAGTTGACACGAAGATATTTTCCGGTCGTCGTCACGGTTGTAAAAAAGTTGGAGATGAACGAAGATGTTTTCGATTATATGGCCTATTCGGAGGGAAAAAAGATGAGAAAAGTGATGATGCACCTTCTAAGGTTAGCTAA

Protein sequence

>MsG0280008929.01.T01

MASMVSLSNATGLCHTKNTLSLRKLNSNSNIVDTKIFSGRRHGCKKVGDERRCFRLYGLFGGKKDEKSDDAPSKVS*