ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTAATCAGTTACGATTTCATGAAATTTCTTCCCTCAGAGGTGGCAGCATCTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGGgtttgtatgaaaacactgcttcatgtgttcacatcatctttaaagtttagacttgtttaacatctaatctgcggtttccgttttacag

Basic information

species	Zea mays
transcript	GRMZM5G879536_T01
intron #	10
splice site	5'
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|213174042|gb|FM192735.1|FM192735

EST:     CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGG                         AACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTNNNACT
genomic: CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGGgtttgtatga ... cgttttacagAACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAACT

EST: gi|211209033|gb|FL477367.1|FL477367

EST:     CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGG                         AACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAACT
genomic: CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGGgtttgtatga ... cgttttacagAACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAACT

EST: gi|32936296|gb|CF041108.1|CF041108

EST:     CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGG                         AACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATAT
genomic: CTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGGgtttgtatga ... cgttttacagAACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATAT

EST: gi|71306182|gb|DR789239.1|DR789239

EST:     TCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCCATCCCTTGG                         AACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAAC
genomic: TCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGA-CCAT-CCTTGGgtttgtatga ... cgttttacagAACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAAC

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: 49 (upstream exon), 46 (downstream exon)
Score: 40

TTTAATCAGTTACGATTTCATGAAATTTCTTCCCTCAGAGGTGGCAGCATCTTCGATTTTCCTTGCAAAATGGACACTTGACCAATCTGACCATCCTTGGgtttgtatga ... cgttttacagAACCCTACTCTTGAGCACTACACGTCTTACAAAAGCTTCGATATTAGAACTTGCGTGCGGGCTCTACAGGAACTGCAGCACAACACCAGTAATTGCCCCC

Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 14

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 7

Block sizes: 45 (upstream exon), 46 (downstream exon)
Score: 26

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

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

RNA-Seq data