ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtcttatgtgttgcaaagcttttgaaccatacatttatatggctggctaattttatttattttgtcag

Basic information

species	Zea mays
transcript	GRMZM5G807639_T03
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G807639_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 5'ss of exon 10

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtact---tagtcttatgtgttgc-aaagct---------tttg--aaccatac--atttatatggctggctaattttatttattttgtcag
||| |||||||||||||| || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| |||||||||||||||||    | |||| |||  |||  |||||          |||  ||   |||  || |||       |||  ||  ||||  ||||||||
GACTAATTTGATGAAGCTGCGGTCTGATTATAAGGATGAGTTTGTCACCAAGCACGGTGTCAAATTGGGTCTGATGTCCTGCTTTGTCAAGgtactgaccaatcttgtgtactgctgaagctgaactattgcttggtaattttactaatatattcaatgtgctcgttccatttgctttgtcag

upper sequence: GRMZM5G807639_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA02G46200.1 (Glycine max), 5'ss of exon 12

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtcttatgtgttgcaaagcttttgaaccatacattta--tatggctggctaattttatttattttgtcag------
||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| |||||||||| |||  |  ||| || |  || ||        | |    | ||    | ||  |  || ||  | |||||  | ||        
GACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTCAAAgtatgttttctaat-tactgaaatataaactagctgggctttctcctttgatttcctcatactttttatggtctccatgttag

upper sequence: GRMZM5G807639_T03 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA14G02530.1 (Glycine max), 5'ss of exon 12

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtcttat----gtgttgcaaagcttttgaaccatacatttatatggctggctaattttatttattttgtcag------
||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| ||||||| || |||  |  ||| ||    |   |  | |     ||     |   ||| |        |  |   | |||||  | ||        
GACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTGAAAgtatgttttctaattactgaagtatagactagctgggttttctctttttgatatcctcatacactttttatggtctccatgttag

upper sequence: GRMZM5G807639_T03 (Zea mays), 5'ss of exon 10
lower sequence: Vv19s0090g00750.t01 (Vitis vinifera), 5'ss of exon 7

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttag----tcttatgtgttgcaaagcttttgaaccataca-ttta---tatggctggctaattttatttattttgtcag--
|||||||||||||||||||||||||||||||||||||| |||| |   |||||||||||| || ||  |  |||||||  | ||||| ||||||   ||    || ||  ||||| ||     |       |  | ||||   || || |   ||  ||| | |||| | |     
GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGCATTTTTTGAAAAGCATGGTGTGAAGTTAAGATTTATGTCAGGGTTTGTTAAGgtaagcagcatgtcctaaatgttgaaatttgctcagtgtttgtagtttaatttaaggatatatatgtttttgtattatattgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|211354774|gb|FL462364.1|FL462364

EST:     GTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: GTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|67025111|gb|CO453860.1|CO453860

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCA-G                         GCTGCTGTTTCTGCACTTCAAAAC-AGCCAATTGTTA-TGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|32935625|gb|CF040437.1|CF040437

EST:     TTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|16919656|gb|BM074297.1|BM074297

EST:     TCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|7031253|gb|AW461141.1|AW461141

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|60343714|gb|DN210687.1|DN210687

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|31349005|gb|CD433362.1|CD433362

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCCAAT-GTTAATGCTGTCATTGA
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCC-AATTGTTAATGCTGTCATTGA

EST: gi|6056485|gb|AW090875.1|AW090875

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|211169877|gb|FL077606.1|FL077606

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

EST: gi|6020821|gb|AW065749.1|AW065749

EST:     TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAG                         GCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT
genomic: TTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGAT

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 46 (upstream exon), 40 (downstream exon)
Score: 132

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGTCAAGgtacttagtc ... attttgtcagGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGATGGCGATGACATCATATACAGAGACTACGTAGACGTCAGTGTTGCTGTTG

Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 241

Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 170