ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGCGAAAGATTCTGGTTCTCCTGAAGCTAATGATTTGACTCACTGGGACCTTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttttttattttgcttcatttaagtatctcaatagttttagctgcaagctgctaagtttcttttactgttgtcagtagccagtaccttttcttt...

Basic information

species	Zea mays
transcript	GRMZM2G133919_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G133919_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 5'ss of exon 8

TGCGAAAGATTCTGGTTCTCCTGAAGCTAATGATTTGACTCACTGGGACCTTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgcttttt-ttattttgcttcatttaa---gtatctca--------atagttttagctgc-aagctgcta-agtttcttttactgttgtcagtagccagtaccttttcttt--------------------------------------------------------------
||| ||||| |||| |||||| ||||| |||||  || ||||||||||||| | ||||||||||||||||||  | || ||||||||||||||||| ||||||   | |||  | | | |     |||||    | ||| |        |  |||||    || || |||  |  | ||  | |  |||    |    |    | ||   || |                                                              
TGCTAAAGAGTCTGCTTCTCCAGAAGCCAATGACCTGGCTCACTGGGACCTAAGCTTCTGGAGTGAACGACTCCGGGAATCTAAATATGATATCAACGAGgttctttctttgctctctagaaatgtttaatggatttcttatgatcagtactgttttgatggctaaactgtgatgggttactgttttgtccatatatacgttgagctgaactctattaaatgtgctcctgttgtgatgatgggccattgagttgatttctagcattgctactgcag

upper sequence: GRMZM2G133919_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 8

TGCGAAAGATTCTGGTTCTCCTGAAGCTAATGATTTGACTCACTGGGACCTTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttttttattttgcttcatttaagtatctcaatagttttagctgcaagctgctaagtttcttttactgttgtcagtagccagtaccttttcttt---
  | |||  |   ||  |    ||||||  |||||||||||| |||||| ||||||| ||||||||  | ||  | ||||| ||||||||||| ||||||||||   | | ||    |   |||||||  |  || |  |       ||  |||     | | ||  || ||||||  || | | || ||       |||   
CTCCAAAAGTCAGGGAGCATTGGAAGCTGGTGATTTGACTCATTGGGACATTACCTTTTGGAGTGAGAGGCTACGTGAGTCAAAATATGATATTAATGAGgtttctctctctttccctctctcattta--ttacttagaaaaaaccactttaagaaaacatggttaattaactgtta-cactggacaataaagagattttgaa

upper sequence: GRMZM2G133919_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA01G02480.1 (Glycine max), 5'ss of exon 8

TGCGAAAGATTCTGGTTCTCCTGAAGCTAATGATTTGACTCACTGGGACCTTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttttttattttgcttcatttaagtatctcaatagttttag----ctgcaagctgctaagtttcttttactgttgtcagtagccagtaccttttcttt
  | |||  |   ||  |    ||||||  |||||||||||| |||||| ||||||  ||||||||  | ||  | ||||| ||||||||||| |||||||||    | ||    | |   ||  |    | | | | |  |   |     ||  |||     ||| ||  || ||||||  || |   || |    |||    
CTCCAAAAGTCAGGGAGCATTGGAAGCTGGTGATTTGACTCATTGGGACATTACCTATTGGAGTGAGAGGCTACGTGAGTCAAAATATGATATTAATGAGgttgctatcttgctctctctctctctctcatttattagttataaaaaaacactttaagaaaacaaggttaattaactgtta-cactgaacaatgaaatttt---

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|211206210|gb|FL245889.1|FL245889

EST:     TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAT                         GAAGAGCTGCGCCCTTATTTTGGCACTACCCAAGGTTA
genomic: TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTG-CACTACCCAAGGTTA

EST: gi|67011759|gb|CO440508.1|CO440508

EST:     TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAG                         GAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC
genomic: TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC

EST: gi|67026706|gb|CO455455.1|CO455455

EST:     TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAG                         GAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC
genomic: TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC

EST: gi|211206209|gb|FL245888.1|FL245888

EST:     TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAG                         GAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC
genomic: TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC

EST: gi|15554185|gb|BI644183.1|BI644183

EST:     TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAG                         GAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC
genomic: TTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTC

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: 47 (upstream exon), 49 (downstream exon)
Score: 181

TGCGAAAGATTCTGGTTCTCCTGAAGCTAATGATTTGACTCACTGGGACCTTACCTTCTGGAGTGAACGACTGAGAGAGTCTAAATATGATATCAATGAGgtttgctttt ... accgttgcagGAAGAGCTGCGCCCTTATTTTGCACTACCCAAGGTTATGGATGGCCTCTTCACTCTGGCACATAAGCTTTTTGGAGTTACTGTTGAACCTGCAGATGGGC

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 151

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 162