ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgttgtcacgacgagtttcccacttgaactggcattgtttcttatcatcacaaaaaaataactctgtagtggtgcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACCGTTTCAAGGACAGTTGATGCGAACGTGTCTGAGGCGGAAGGTGTATACA

Basic information

species	Zea mays
transcript	GRMZM2G134256_T02
intron #	4
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G134256_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g70170.1 (Oryza sativa), 3'ss of exon 5

------------------------gtatgttgtcacgacgagtttc---ccacttgaactg-gcattgtttcttatcat-cacaaaaaaataactctg----------tagtggtgcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACCGTTTCAAGGACAGTTGATGCGAACGTGTCTGAGGCGGAAGGTGTATACA
                          || || |||    || | |      |  ||||  | ||      |   ||||| ||||     |||| |  |          ||   |||| |||||||||    || ||||||||||||||| |||  |||||||| ||||||||||| ||||| |||||| | || || ||||| || || || |||||||||||||
gtgagtttccacagcaaatttacttcatcttatcatctagattgttggaatagctgaatagagctcgacattccatcatacacatgggcataatttcgaagcaaatgctaactgtgcgctttcagGTTTCTACCATGCCCGACCAAGCTCTGCTGGCATTCATCGACCACGGCACAGTTTCGAGGACAATCGACGCAAACGTTTCGGATGCTGAAGGTGTATACA

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|83279060|gb|DV943068.1|DV943068

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTTTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|28985145|gb|BQ539342.2|BQ539342

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|32943331|gb|CF048150.1|CF048150

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|37383227|gb|CF628606.1|CF628606

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|32865466|gb|CF005148.1|CF005148

EST:     ACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: ACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60357634|gb|DN224607.1|DN224607

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|32839773|gb|CD979454.1|CD979454

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60348147|gb|DN215120.1|DN215120

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|37383764|gb|CF628914.1|CF628914

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60400687|gb|DN233494.1|DN233494

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|45847484|gb|CN071427.1|CN071427

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|211029022|gb|FL468592.1|FL468592

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACMCGATGCCCGACCAASCTTTGCAAGCATTCATAGACCMCGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|113674923|gb|DW829472.1|DW829472

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGAC-AAGCTTTGCAAG
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAG

EST: gi|6952395|gb|AW424463.1|AW424463

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60354832|gb|DN221805.1|DN221805

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60349612|gb|DN216585.1|DN216585

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|6601774|gb|AW256215.1|AW256215

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|6056509|gb|AW090899.1|AW090899

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|37400547|gb|CF637629.1|CF637629

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|60355444|gb|DN222417.1|DN222417

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|148949494|gb|EC894958.2|EC894958

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|211315754|gb|FL422334.1|FL422334

EST:     TCCTGACACTCTTTATGTGGACAGTCTCATCCTTTCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: TCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|21432436|gb|BQ547926.1|BQ547926

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|6021007|gb|AW065935.1|AW065935

EST:     CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

EST: gi|32840663|gb|CD980344.1|CD980344

EST:     CTTTATGTGGACAGTCTCATCGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC
genomic: CTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACC

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: 252

AGGTGCCAAGAAACAAAGGTTGTTGTGGGCATCCACCGGTGTCAAGAACCCAGCTTATCCTGACACTCTTTATGTGGACAGTCTCATCGGACCTGACACGgtatgttgtc ... gcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACCGTTTCAAGGACAGTTGATGCGAACGTGTCTGAGGCGGAAGGTGTATACA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 879

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 952

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 521

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ctggcattgtttcttatcatcacaaaaaaataactctgtagtggtgcactttcagGTCAACACGATGCCCGACCAAGCTTTGCAAGCATTCATAGACCACGGCACCGTTTCAAGGACAGTTGATGCGAACGTGTCTGAGGCGGAAGGTGTATACA