AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011304.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011304.01.T01 MTR_2g101850 100.000 46 0 0 21 66 1 46 1.50e-27 96.3
MsG0280011304.01.T01 MTR_6g087770 76.087 46 11 0 21 66 1 46 1.99e-21 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011304.01.T01 AT1G52245 80.435 46 9 0 21 66 1 46 4.94e-23 85.1
MsG0280011304.01.T01 AT3G16120 71.739 46 13 0 21 66 1 46 1.82e-17 70.9
MsG0280011304.01.T01 AT3G16120 71.739 46 13 0 21 66 1 46 1.82e-17 70.9

Find 5 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGAATCTGCATCTTAGT+TGG 0.432610 2:+82172065 None:intergenic
AACAGTAACTTCAAAGATGT+TGG 0.466683 2:-82172120 MsG0280011304.01.T01:CDS
TAAGATGCAGATTCAAGCCA+TGG 0.595332 2:-82172060 MsG0280011304.01.T01:CDS
GTAACTTCAAAGATGTTGGA+AGG 0.606545 2:-82172116 MsG0280011304.01.T01:CDS
AGCTTCAGAAGCATAAGCCA+TGG 0.620640 2:+82172043 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTGTTTAATAATGAT+CGG - Chr2:82172447-82172466 MsG0280011304.01.T01:intron 10.0%
!!! GAAAATTATTTCCTTTATTT+TGG - Chr2:82172525-82172544 MsG0280011304.01.T01:intron 15.0%
!!! GATAAGAATATATATAGTTT+TGG - Chr2:82172041-82172060 MsG0280011304.01.T01:CDS 15.0%
!!! TACTATTTTTATTTTTCCTT+TGG + Chr2:82172702-82172721 None:intergenic 15.0%
!! AATAGTAAAATATGCCATAT+AGG - Chr2:82172715-82172734 MsG0280011304.01.T01:intron 20.0%
!! ACATAGAAATATAAAAGAAG+AGG - Chr2:82172477-82172496 MsG0280011304.01.T01:intron 20.0%
!! AGTGATTATTGAAATTTGAA+TGG + Chr2:82172268-82172287 None:intergenic 20.0%
!! ATAGAAATATAAAAGAAGAG+GGG - Chr2:82172479-82172498 MsG0280011304.01.T01:intron 20.0%
!! CATAGAAATATAAAAGAAGA+GGG - Chr2:82172478-82172497 MsG0280011304.01.T01:intron 20.0%
!!! AAAATGTAACCTTTTTTATG+TGG + Chr2:82173073-82173092 None:intergenic 20.0%
!!! AAATGTAACCTTTTTTATGT+GGG + Chr2:82173072-82173091 None:intergenic 20.0%
!!! TTTTGAGCATTTTCTATTAA+TGG + Chr2:82172670-82172689 None:intergenic 20.0%
! AAATATACAGTTACTCAGTT+AGG - Chr2:82172157-82172176 MsG0280011304.01.T01:intron 25.0%
! AAGAACAAACAACTAAACAT+TGG - Chr2:82172198-82172217 MsG0280011304.01.T01:intron 25.0%
! ATGTTTATATCATAACTCGA+TGG + Chr2:82172336-82172355 None:intergenic 25.0%
! TAGAAATATAAAAGAAGAGG+GGG - Chr2:82172480-82172499 MsG0280011304.01.T01:intron 25.0%
!!! AGATAGACTTTAAAATGACA+CGG + Chr2:82172821-82172840 None:intergenic 25.0%
!!! CTATTTTGAAGACTAAAGAA+AGG + Chr2:82172849-82172868 None:intergenic 25.0%
AAAATGACACGGAAAAAACA+TGG + Chr2:82172810-82172829 None:intergenic 30.0%
AACAGTAACTTCAAAGATGT+TGG - Chr2:82172929-82172948 MsG0280011304.01.T01:intron 30.0%
ACTGATACTATATGCCTATA+TGG + Chr2:82172732-82172751 None:intergenic 30.0%
!!! TTTTTGGGACAACAAAGATA+TGG - Chr2:82171922-82171941 MsG0280011304.01.T01:CDS 30.0%
AATCAGCTTGAAGTGAAATG+TGG - Chr2:82171959-82171978 MsG0280011304.01.T01:CDS 35.0%
CTCAAAATCTCTGTAACCAA+AGG - Chr2:82172683-82172702 MsG0280011304.01.T01:intron 35.0%
GGTTGCATTCCTTATGTTAA+GGG + Chr2:82172789-82172808 None:intergenic 35.0%
GTAACTTCAAAGATGTTGGA+AGG - Chr2:82172933-82172952 MsG0280011304.01.T01:intron 35.0%
TCACTCATGTTGTCTTTACT+AGG + Chr2:82172591-82172610 None:intergenic 35.0%
TCGATGGTATATGTGTATGT+TGG + Chr2:82172320-82172339 None:intergenic 35.0%
TGAGTCATTCCCTTAACATA+AGG - Chr2:82172777-82172796 MsG0280011304.01.T01:intron 35.0%
TGGTTGCATTCCTTATGTTA+AGG + Chr2:82172790-82172809 None:intergenic 35.0%
TTAGATCTCCTTTCAGTTCT+TGG - Chr2:82172895-82172914 MsG0280011304.01.T01:intron 35.0%
! CATGATGAAAAGTATGAGTG+AGG - Chr2:82172621-82172640 MsG0280011304.01.T01:intron 35.0%
! CTCACTCATACTTTTCATCA+TGG + Chr2:82172623-82172642 None:intergenic 35.0%
!!! GGAGACAATCTTTTGCTATT+TGG + Chr2:82172299-82172318 None:intergenic 35.0%
ATTGCTATCCTTGACACGAA+AGG + Chr2:82172235-82172254 None:intergenic 40.0%
CATTGCTGCCCACATAAAAA+AGG - Chr2:82173061-82173080 MsG0280011304.01.T01:intron 40.0%
CCTTATCTCCAAGAACTGAA+AGG + Chr2:82172906-82172925 None:intergenic 40.0%
CCTTTCAGTTCTTGGAGATA+AGG - Chr2:82172903-82172922 MsG0280011304.01.T01:intron 40.0%
GCTTGAATCTGCATCTTAGT+TGG + Chr2:82172987-82173006 None:intergenic 40.0%
TAAGATGCAGATTCAAGCCA+TGG - Chr2:82172989-82173008 MsG0280011304.01.T01:intron 40.0%
TTGCTATCCTTGACACGAAA+GGG + Chr2:82172234-82172253 None:intergenic 40.0%
! AAGCACTGTACTAGATAACC+TGG + Chr2:82172556-82172575 None:intergenic 40.0%
!!! CTTTTTTATGTGGGCAGCAA+TGG + Chr2:82173063-82173082 None:intergenic 40.0%
ACCTGGTGAGGCCAAAATAA+AGG + Chr2:82172539-82172558 None:intergenic 45.0%
ACTTTCACCCTTTCGTGTCA+AGG - Chr2:82172224-82172243 MsG0280011304.01.T01:intron 45.0%
AGACAACATGAGTGACGACA+AGG - Chr2:82172596-82172615 MsG0280011304.01.T01:intron 45.0%
CTGTACTAGATAACCTGGTG+AGG + Chr2:82172551-82172570 None:intergenic 45.0%
GTATCAGTGCTAGCGTGATA+TGG - Chr2:82172744-82172763 MsG0280011304.01.T01:intron 45.0%
TTGACACGAAAGGGTGAAAG+TGG + Chr2:82172225-82172244 None:intergenic 45.0%
! AGCTTCAGAAGCATAAGCCA+TGG + Chr2:82173009-82173028 None:intergenic 45.0%
!!! TCCTTTATTTTGGCCTCACC+AGG - Chr2:82172535-82172554 MsG0280011304.01.T01:intron 45.0%
Chromosome Type Strat End Strand Name
Chr2 gene 82171911 82173160 82171911 ID=MsG0280011304.01;Name=MsG0280011304.01
Chr2 mRNA 82171911 82173160 82171911 ID=MsG0280011304.01.T01;Parent=MsG0280011304.01;Name=MsG0280011304.01.T01;_AED=0.46;_eAED=0.68;_QI=0|0|0|0.5|0|0|2|0|91
Chr2 exon 82173121 82173160 82173121 ID=MsG0280011304.01.T01:exon:12414;Parent=MsG0280011304.01.T01
Chr2 exon 82171911 82172146 82171911 ID=MsG0280011304.01.T01:exon:12413;Parent=MsG0280011304.01.T01
Chr2 CDS 82173121 82173160 82173121 ID=MsG0280011304.01.T01:cds;Parent=MsG0280011304.01.T01
Chr2 CDS 82171911 82172146 82171911 ID=MsG0280011304.01.T01:cds;Parent=MsG0280011304.01.T01
Gene Sequence

>MsG0280011304.01.T01

ATGAAGCTGTCTTTTTGGGACAACAAAGATATGGTTGCAAGTTTAACAGTAACTTCAAAGATGTTGGAAGGTAAAGCTATGATAGAAGATACTGACATGCCAACTAAGATGCAGATTCAAGCCATGGCTTATGCTTCTGAAGCTCTTGATCTATATGATGTTATTGATTGCAAATCCATTGCTGCCCACATAAAAAAGGTTACATTTTTCTCTTCAATTATTGTATTATACACACAACACAACATCATTAAGTTGTTCATTTATAGATGTATATAA

Protein sequence

>MsG0280011304.01.T01

MKLSFWDNKDMVASLTVTSKMLEGKAMIEDTDMPTKMQIQAMAYASEALDLYDVIDCKSIAAHIKKVTFFSSIIVLYTQHNIIKLFIYRCI*