ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCCGTCCGGTTAGACGAAGCCGCCCGCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctctcacgctgcagtgttcttttaatctcagagttttcttttttttgagcggtcgcgtggttatgtggggggtgtttcttgtttgcag

Basic information

species	Zea mays
transcript	GRMZM2G157443_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G157443_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g02340.2 (Oryza sativa), 5'ss of exon 1

TCCGTCCGGTTAGACGAAGCCG--CCCGCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctctcacgctgcagtgttcttttaatctcagagttttcttttttttgagcgg-tcgcgtg-gttatgtggggggtgtttcttgtttgcag---------------
   || ||  ||||  |   ||  | |||  ||||| | ||| | ||| ||||||||||   ||||||||||||||||  |||||| |||||| |||||||||||||||    ||| || ||    | | || || |     |||||||   || | | || |   ||| || |  | |    | | | ||||| |                  
AGAGTTCG--TAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacac-cttcacccctatcttgattttgc--ttttcttggcttggggtggatttggtgtgtgagattgattatttattttgttggtgatttggtgacgagcag

upper sequence: GRMZM2G157443_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g02340.1 (Oryza sativa), 5'ss of exon 2

TCCGTCCGGTTAGACGAAGCCG--CCCGCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctctcacgctgcagtgttcttttaatctcagagttttcttttttttgagcgg-tcgcgtg-gttatgtggggggtgtttcttgtttgcag---------------
   || ||  ||||  |   ||  | |||  ||||| | ||| | ||| ||||||||||   ||||||||||||||||  |||||| |||||| |||||||||||||||    ||| || ||    | | || || |     |||||||   || | | || |   ||| || |  | |    | | | ||||| |                  
--AGTTCG--TAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacac-cttcacccctatcttgattttgc--ttttcttggcttggggtggatttggtgtgtgagattgattatttattttgttggtgatttggtgacgagcag

upper sequence: GRMZM2G157443_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S152_152V6.1 (Physcomitrella patens), 5'ss of exon 1

TCCGTCCGGTTAGACGAAGCCGCCC-GCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgt-tctctca--cgctgcagtgttcttttaatctcagagttttcttttt--tttgagcggtcgcgtggttatgtggggggtgtttcttgtttgcag
    ||| ||   |      ||| | |   ||||| |   | | ||||| || ||||||||||||  ||||||||||  ||| ||||||||||||||||| ||  |  ||  |||  || |    ||   |||| |  ||  | ||||   |||  | |        |  || |    ||   |  |    || ||| |  
-AGCTCCCGTCGTAATCTCTCGCTCTGTCACCATGTCGGTCAGCGAGCTTGCTTGCACCTACGCCTGCCTCATCCTCCACGATGACGGCATCGCCATCACTgtaagaatccttcaatcgttattctggagtttttaggtcgaaattttaggtttagtgtagatcactgtctgatgcgttgcttgcagcagtttatttactt

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|211042138|gb|FL385016.1|FL385016

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCNCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGNCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211529784|gb|FL373525.1|FL373525

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211507235|gb|FL422061.1|FL422061

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211014153|gb|FL393610.1|FL393610

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCNTCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211151701|gb|FL395047.1|FL395047

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGGATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|9794508|gb|BE552816.1|BE552816

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGTCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211038599|gb|FL345810.1|FL345810

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211376384|gb|FL377804.1|FL377804

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211298275|gb|FL361776.1|FL361776

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGNCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211102283|gb|FL386869.1|FL386869

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211235863|gb|FL372783.1|FL372783

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211406019|gb|FL414976.1|FL414976

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211307145|gb|FL392851.1|FL392851

EST:     CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACC                         GCCGAGAAGATCGCCACCATCGTGAAGGCGGCCA
genomic: CCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCA

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: 859

TCCGTCCGGTTAGACGAAGCCGCCCGCACCCATGGCCTCCGGTGAGCTCGCCTGCACCTACGCCGCCCTCATCCTCAGCGACGACGGCATCGCCATCACCgtgcgttctc ... ttgtttgcagGCCGAGAAGATCGCCACCATCGTGAAGGCGGCCAACATCAAGGTCGAGTCCTACTGGCCGGCGCTCTTCGCTAAGCTCCTGGAGAAGCGCAGCGTTGAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 215

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 182