ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtacgcatcccttccgctgtcttcctcttctcgtctgggcggcggctcttgacgatctccgcgtggctggctggttgcagGGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG

Basic information

species	Zea mays
transcript	GRMZM5G839349_T01
intron #	1
splice site	3'
intron type	U2

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|148954551|gb|EC899989.2|EC899989

EST:     TACTTCGAGCCGGACTTCGACCCGCTCCTCGACCGCCTCGGCACCCCCGG                         GGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG
genomic: TACTTCGAGCCGGACTTCGACCCGCTCCTCGACCGCCTCGGCACCCCCGGgtacgcatcc ... ctggttgcagGGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG

EST: gi|148945599|gb|EC890853.2|EC890853

EST:     TACTTCGAGCCGGACTTCGACCCGCTCCTCGACCGCCTCGGCACCCCCGG                         GGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG
genomic: TACTTCGAGCCGGACTTCGACCCGCTCCTCGACCGCCTCGGCACCCCCGGgtacgcatcc ... ctggttgcagGGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG

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 2 RNA-Seq libraries.

Block sizes: 29 (upstream exon), 21 (downstream exon)
Score: 1

CTCGTGCCTGTCAAGTAAGATCGGTGGCGATGAAGTGCGTCTCCGGCGCGTACTTCGAGCCGGACTTCGACCCGCTCCTCGACCGCCTCGGCACCCCCGGgtacgcatcc ... ctggttgcagGGTCGTCGTCGATAACGAGACGCGCGAGGACTGCACGCTCGTCAAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 24