ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttgtttccttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA

Basic information

species	Zea mays
transcript	GRMZM2G121942_T03
intron #	3
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G121942_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g34480.1 (Oryza sativa), 3'ss of exon 3

gtaagtatcctgttctttttgtaacaaaagatgctactaaattataagacatcaatgcttaattttg----tttccttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA
||||||||     | |||    || |||  |   |      ||   | |  |     |||| | |||    |||| ||  || |||||||||||| ||||||||||| || || || ||||| || ||||||||||||||||||||||| ||||||||| ||||||||||||| ||||| || |||
gtaagtatatc--tttttccaaaataaacaaaaatgtgttgttggga-atgtagtaacttagtattgaggatttcttttattgcagTGAATGGGCAGTAAACATCCAAAGGGATAGCTATGCATCCTATATTGGGCACTATCCAATGCTGGCATATTTTTCCATTGCTGAGAATGAATCAATTGGA

upper sequence: GRMZM2G121942_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2

gtaagtatcctgttctttttgtaacaaaag------atgctactaaattataagacatcaatgcttaattttgtttccttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA
|| ||| || | |  |||| ||    |||       ||||       ||||  |  |  |||   |    ||| ||       |||||||| |||||||| ||||| ||| | || |||||||| || || ||||| ||||| || |||||  |||| ||||| |||||||||||||| || || |||
gtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattggtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA

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|211191930|gb|FL276018.1|FL276018

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211194324|gb|FL276026.1|FL276026

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191923|gb|FL276011.1|FL276011

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|9566444|gb|BE475953.1|BE475953

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191934|gb|FL276022.1|FL276022

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211194323|gb|FL276025.1|FL276025

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191922|gb|FL276010.1|FL276010

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211359713|gb|FL342921.1|FL342921

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGCTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211194325|gb|FL276027.1|FL276027

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211088952|gb|FL225885.1|FL225885

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191933|gb|FL276021.1|FL276021

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191925|gb|FL276013.1|FL276013

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191928|gb|FL276016.1|FL276016

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|37387079|gb|CF630732.1|CF630732

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211191926|gb|FL276014.1|FL276014

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

EST: gi|211194322|gb|FL276024.1|FL276024

EST:     CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATT                         TGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTNGGCA
genomic: CATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCA

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), 49 (downstream exon)
Score: 131

GCTAGCGATAGGTTCAACATAAACTCTCAGCTTGAGCATCTTCAAGCCAAATATGTTGGTACAGGGCATGCTGATTTGTCTAGATTgtaagtatcc ... ttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 150

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 130

Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 61

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aagatgctactaaattataagacatcaatgcttaattttgtttccttatttacagTGAATGGGCTGTAAACATCCAGAGAGACAGTTATGCCTCTTATATTGGGCACTATCCAATGCTAGCATATTTTGCCATTGCTGAGAACGAATCGATCGGA