ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgttgaactatgtaacctctcagagttttaccatcctagtattaaacaacttggtcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGATAGGGATGGCATCTATAGCTACTATTACTGTACTGTTACCGACTATCTT

Basic information

species	Zea mays
transcript	GRMZM2G166903_T01
intron #	8
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G166903_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g43700.1 (Oryza sativa), 3'ss of exon 9

gtatgttgaact-atgtaacctctcagagttt-taccatcctagtattaaacaacttggtcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGATAGGGATGGCATCTATAGCTACTATTACTGTACTGTTACCGACTATCTT
|| |||| |  | ||  |   |  |||| ||| |    || | |||   ||||| ||||||| |||||||||  || |  |||||||||||||| ||||| ||||||||||||||||||| ||||||||||  |||||||| | | |||||| ||||||||||| ||||
gtgtgttaactttatagatttttgcagaatttcttttttcatggtaaccaacaatttggtctattgcagGCCGGCACCATAATATGTCTGACTGTGACATAGATGCAACATTTTACTGGACAGGGATGGCAATTATAGCTATTGTCACTGTATTGTTACCGACTCTCTT

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|211424146|gb|FL418433.1|FL418433

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|149085754|gb|EE175274.2|EE175274

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|89760627|gb|DY688959.1|DY688959

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|60395150|gb|DN228019.1|DN228019

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|78021391|gb|DV489778.1|DV489778

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATAGGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|211402880|gb|FL375611.1|FL375611

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|6020784|gb|AW065712.1|AW065712

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|211191149|gb|FL459428.1|FL459428

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|5871116|gb|AW017557.1|AW017557

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|110200546|gb|EC882443.1|EC882443

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

EST: gi|149094689|gb|EE180238.2|EE180238

EST:     CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAG                         GCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA
genomic: CCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGA

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), 47 (downstream exon)
Score: 38

TTTGGGAGTTATCTCCGTTTTGTCTACCGGTGGGGAAGTATCAGTGCAAACCATGTGGGATTTAGCAATTCTGACTCATCGGAGAATCATATGGGTCCAGgtatgttgaa ... tcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGATAGGGATGGCATCTATAGCTACTATTACTGTACTGTTACCGACTATCTT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 95

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 161

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 64

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

atgtaacctctcagagttttaccatcctagtattaaacaacttggtcttttgcagGCCATCAGCGAAATATGTCTGACTGCGACATGGATGCAACATTTTACTGGATAGGGATGGCATCTATAGCTACTATTACTGTACTGTTACCGACTATCTT