ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGCGTCCCGGCCGATCTGAGCAGGGACGACTGGCTCGCCGCGCTCCCAAGGGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaattccttcgattcatggaactaaattgattgctaccctcacttgtcactaccaactactagcaagtaccgcgcatgtactactagttgagt...

Basic information

species	Zea mays
transcript	GRMZM2G015610_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G015610_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g37660.2 (Oryza sativa), 5'ss of exon 2

TGCGTCCCGGCCGATCTGAGCAGGGACGACTGGCTCGCCGCGCTCCCAAGGGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaattccttcgattcatggaactaaattgatt---gctaccctcacttgtcactaccaactactagcaagtaccgcgcatgtactactagttgagt------------------------------------------------------------------------------
||||| || |||||||||||| | ||||| |||||||| |||||||| |||||||| || ||||||||||||||||| ||||||||||||||||| | |||||     ||||||| |      ||| ||||| | | |    | |   |||||||   | || ||  || ||     |||  |  |       |||||    |                                                                              
TGCGTTCCTGCCGATCTGAGCGGCGACGAGTGGCTCGCAGCGCTCCCGAGGGCGCTGGTGGCCGGGTTCGTCAAGACGGACAAGGATTTTCAAACAAGAGgta-taataattcctcc------tgggactaactggctcctagttcttctcacttagtattatcag-tagtacagtttactacttaaccctgtctagtctcttatgaccagccgttactgggtgattgctttctaccccgcaataagagatgagtacaatttgtctactcgtgtgtttcag

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|91869347|gb|EB400346.1|EB400346

EST:     GGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAG                         CTCATTCCTCGGGGACAACCGTGACACTTGCCATAATTGATGGCTCCGTTG
genomic: GGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaa ... tttttttcagCTCATTCCTCGGGGACAACCGTGACACTTGCCATAATTGATGGCTCCGTTG

EST: gi|148930783|gb|EC873124.2|EC873124

EST:     GGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAG                         CTCATTCCTCGGGGACAACCGTGACACTTGCCATAATTGATGGCTCCGTTG
genomic: GGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaa ... tttttttcagCTCATTCCTCGGGGACAACCGTGACACTTGCCATAATTGATGGCTCCGTTG

EST: gi|211205708|gb|FL335686.1|FL335686

EST:     GGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAG                         CTCATTCCTCGGGG
genomic: GGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaa ... tttttttcagCTCATTCCTCGGGG

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: 48 (upstream exon), 49 (downstream exon)
Score: 363

TGCGTCCCGGCCGATCTGAGCAGGGACGACTGGCTCGCCGCGCTCCCAAGGGCGCTCGTCGCCGGGTTCGTCAAGACCGACAAGGATTTTCAAACTAAAGgtaactgaaa ... tttttttcagCTCATTCCTCGGGGACAACCGTGACACTTGCCATAATTGATGGCTCCGTTGTAACTGTTGCGTCCGTTGGTGACTCACGTTGTGTCCTTGATGCTGCGGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 164

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 131