ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACTAGTCCCTGTTATACATGCTGCAAACATTATAAGGAGGACAGATTTTTTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatgcatatagcattgagagtacatcaagttttgtcaaaataatttcttagatcttgatattgtaaccttgctttcag

Basic information

species	Zea mays
transcript	GRMZM2G031461_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G031461_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os09g15340.1 (Oryza sativa), 5'ss of exon 8

GACTAGTCCCTGTTATACATGCTGCAAACATTATAAGGAGGACAGATTTTTTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatgcatatagcattgagagtacatcaagttttgtcaaaata---atttcttagatcttgatattgtaaccttgctttcag----------------------------------------
|| || |||||||   |||||||||||| |||||  |||||||| ||||||||||||| || |||||||||||||| || |||||||||||||||||||||||  |  |||||||   |||     |   |  |       ||||| |   | ||| | | |||     | ||   ||| | || |                                         
GATTAATCCCTGTACCACATGCTGCAAATATTATCCGGAGGACACATTTTTTCAAGCCAAATTGCAACCTTGTGATTATTGACTTCCTCTTCCGTCATGGgtatcacgtgcatattatattcttcttttgttcatcgcaaccaaaaaatgaaattccttgttctatgagtagtttgctttcattaacaaaagtttctcacatgctgtcttgataatctcccttttag

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|211200352|gb|FL437137.1|FL437137

EST:     TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTTTTCCGTCATGG                         GTACATAAACCCAGATTCTCGTGGTTACTTAGATCTGCTGCAAAGCTTGAG
genomic: TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatg ... ttgctttcagGTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAG

EST: gi|83278368|gb|DV942376.1|DV942376

EST:     TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGG                         GTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAG
genomic: TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatg ... ttgctttcagGTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAG

EST: gi|166556758|gb|EG187738.1|EG187738

EST:     TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGG                         GTACATAAACCCAGATTCTCGTTGTTACTTAGATC
genomic: TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatg ... ttgctttcagGTACATAAACCCAGATTCTCGTTGTTACTTAGATC

EST: gi|78112939|gb|DV531333.1|DV531333

EST:     TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGG                         GTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAG
genomic: TTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatg ... ttgctttcagGTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAG

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: 39 (upstream exon), 49 (downstream exon)
Score: 19

GACTAGTCCCTGTTATACATGCTGCAAACATTATAAGGAGGACAGATTTTTTCAAGCCGAACTGCAACCTTGTGATCATCGACTTCCTCTTCCGTCATGGgtactatatg ... ttgctttcagGTACATAAACCCAGATTCTCGTTGTTACTTAGATCTGCTGCAAAGCTTGAGGAGTGGTGATTGTTCCTAACTCTCTTTTGCTGTCCACATTTATAATCAT

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 22

Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 17