ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAGCGCTCGTCTTCCAGATAACCACCGCGGTGGCCTCGTACCGCCGCCTCCTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctcgagccctcttatgctttacatatctagcgatcagcgtaaacccttgcgtaaatttgctagcttgagtactagtaagccttgcccaattca...

Basic information

species	Zea mays
transcript	GRMZM2G108087_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G108087_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g47440.2 (Oryza sativa), 5'ss of exon 1

GAGCGCTCGTCTTCCAGATAACCACCGCGGTGGCCTCGTACCGCCGCCTCCTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctcgagccctcttatgctttacatatctagcgatcagcgtaaacccttgcgtaaatttgctagcttgagtactagtaagccttgcccaat-tca---
| ||||||||||||||||| |||||||| |||||||| |||||||||||||||||||||||||| |||||||||||||||  | | ||||||||  | |||||||||||||  ||| |  |  | | ||   | ||   ||    ||   ||  | |     ||      || || | ||||     |  |   | | | |   
GCGCGCTCGTCTTCCAGATCACCACCGCCGTGGCCTCCTACCGCCGCCTCCTCAACTCGCTCGGGACGCCCAAGGACACCCCCGCCCTTCGTGACCAGCTgtctctcctcgctcccccccactcctcactccttta---attgttgtttgcctctacacgt-ttcatgtcctagaatgctagatgctcgcgattattattattt

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|89251975|gb|DY623761.1|DY623761

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|74235067|gb|DT642981.1|DT642981

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|211344769|gb|FL217861.1|FL217861

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|78082082|gb|DV510494.1|DV510494

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCCATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|76286077|gb|DV025645.1|DV025645

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|78093274|gb|DV521648.1|DV521648

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|74234506|gb|DT642420.1|DT642420

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|74239521|gb|DT647435.1|DT647435

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|211344765|gb|FL217857.1|FL217857

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAG
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAG

EST: gi|60336907|gb|DN203880.1|DN203880

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|78117098|gb|DV535485.1|DV535485

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|101384043|gb|EB814076.1|EB814076

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGGGATAACCT                         GCATAAGACTAGT
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGT

EST: gi|33467876|gb|CF244925.1|CF244925

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|211347160|gb|FL217865.1|FL217865

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|74234352|gb|DT642266.1|DT642266

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|78074309|gb|DV502743.1|DV502743

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|211344768|gb|FL217860.1|FL217860

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAGGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|89756275|gb|DY686358.1|DY686358

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

EST: gi|71768040|gb|DR965977.1|DR965977

EST:     CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCT                         GCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA
genomic: CTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAA

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: 27 (upstream exon), 49 (downstream exon)
Score: 82

GAGCGCTCGTCTTCCAGATAACCACCGCGGTGGCCTCGTACCGCCGCCTCCTCAACTCGCTCGGCACGCCCAAGGACACCATCACGCTTCGTGATAACCTgtctctcctc ... tccctcgcagGCATAAGACTAGTCAGAACATCCTTCAATTAGCAAAGGATGCGAAAGATAAGCTCCAAAAGGCTGCTGAAGCAGACAAGAGCACTGATACAAGT

Block sizes: 24 (upstream exon), 48 (downstream exon)
Score: 83

Block sizes: 28 (upstream exon), 49 (downstream exon)
Score: 128