ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtggacctgtggccatgcctaaatgcttgtagtatactgtactaatctgc...

Basic information

species	Zea mays
transcript	GRMZM2G094390_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G094390_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 5'ss of exon 2

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtggacctgtggccatgcctaaatgcttgtagt--atactgtactaatctgc--
||||||||||||| ||||| |||||||||||||||||||||||||||||||||||||| || |  ||||| ||||||||||| |||||||||||||||||||  ||   |||||    |  |    ||| |   |   ||| |  | |       | | |     | |  |  ||| |  ||   ||  |||| |  | |    
CCAAGAACCCGACCTGGGCCTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCTGCCGTCCACCGTAGCCTCGGCGTTCACGTCTCCTTCGTCAGgttccc---cctcatacacccccgcactccttctatgtctgcctgccttacaattcatatcatt-tactgaggtgccttgagctaatcatgtatttttttctct

upper sequence: GRMZM2G094390_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G36700.2 (Glycine max), 5'ss of exon 2

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtc-gcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtggacctgtggccatgcctaaatgcttgtagtat-actgtactaatctgc
| |||||||| || |||||||||||||| || ||  |||| ||||||||||| ||||| || |  |||||||| |||||||| ||| ||  |||||| |||   |  |   || |  |  ||    |      ||| |  |||  |  |   ||  |  |      |   |||    ||| | | | | |||     |    
CGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTTCTCTGCATCGATTGCTCCGCCGTACACCGCAGTCTCGGCGTGCACATCAGCTTCGTGAGgcaagtttttgctgattttgtttcaatggtgaatca-atttgttaatttttctgtgcg-gaaattgtttgtaaccttttgaaatctgattgtgtggctgatt

upper sequence: GRMZM2G094390_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G12340.1 (Glycine max), 5'ss of exon 2

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtgg-acctgtggccatgcctaaatgcttgtagtat-actgta---ctaatctgc
| |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || |  |||||||| |||||||| ||| ||  |||||| |||    |  |  |   ||| || | ||    |     | ||||      |  |   |  || ||  ||   ||   | ||| | ||| | |||    || ||    
CGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCGTGCACATCAGCTTCGTGAGg----caagtttttgctgattttgtttgaatggtgaatctgtttgttgattttttatgtgcggaaatttgtatcggtttgcaatatgattgtgtggctgattct-

upper sequence: GRMZM2G094390_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G12340.2 (Glycine max), 5'ss of exon 2

-----CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtgg-acctgtggccatgcctaaatgcttgtagtatactgtactaatctgc
     | |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || |  |||||||| |||||||| ||| ||  |||||| |||    |  |  |   ||| || | ||    |     | ||||      |  |   |  || ||  ||   ||   | ||| | |||  | |      ||| 
CAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCGTGCACATCAGCTTCgtgagg----caagtttttgctgattttgtttgaatggtgaatctgtttgttgattttttatgtgcggaaatttgtatcggtttgcaatatgat-tgtgtggctg-

upper sequence: GRMZM2G094390_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 5'ss of exon 2

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcacctgcttctcttctcttctcacacctgtccacgtacgtggacc--tgtggccatgcctaaatgcttgtagtatactgtactaatctgc
| ||||||||||| |||||||||||||| || ||  |||||||||||||||||||||| || | |||  | || || || || ||| ||  |||||||||||    ||   |       ||      |     ||    |       |  |  |  |  | |||  ||     | | |   |||  |  ||   |||  |  
CGAAGAACCCGACTTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGACTGCTCCGCCGTGCATAGGAGTCTTGGGGTTCACATCAGCTTCGTCAGgtgatttcaattttgagttttggtggtttgatccatgatttagggttttggcagttcaatttggtgatttgatatttcgactagggttttgatttaagat--

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|211011501|gb|FL284249.1|FL284249

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211008716|gb|FL284228.1|FL284228

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211011498|gb|FL284246.1|FL284246

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211005952|gb|FL284225.1|FL284225

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211005945|gb|FL284218.1|FL284218

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211008725|gb|FL284237.1|FL284237

EST:     GACTGCTCGGCGGNGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211008727|gb|FL284239.1|FL284239

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|89755431|gb|DY685850.1|DY685850

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|93282709|gb|EB674973.1|EB674973

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|101394873|gb|EB819371.1|EB819371

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACACATTTGGATTCATGGACTCCAGAACAACCTGAAAATGATGGTCT
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAAC-TGAAAATGATGGTCT

EST: gi|6578063|gb|AW244200.1|AW244200

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211005949|gb|FL284222.1|FL284222

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|50326040|gb|CO521166.1|CO521166

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211011496|gb|FL284244.1|FL284244

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|91868839|gb|EB400177.1|EB400177

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211011493|gb|FL284241.1|FL284241

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211005951|gb|FL284224.1|FL284224

EST:     GACTGCTCGGCGGCGCACCS-AGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

EST: gi|211008718|gb|FL284230.1|FL284230

EST:     GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGG
genomic: GACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGG

EST: gi|31350258|gb|CD434615.1|CD434615

EST:     ACTGCTCTGTC-CCGCAACGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA
genomic: ACTGCTC-GGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTA

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: 46 (upstream exon), 49 (downstream exon)
Score: 22

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTATGGCGGAAATAACCGTGCGCAAGCTTTCTTTAAGCAGCATGGTTGGACA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 80

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 52