ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

GAACGATGAGTTCTCCAGAGTGCTCCATCAGCAAATGGAGTTCTTCTCCAGCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcaccttcccttcccatcaaaccgagtaaatgtctgttccgtctctctggtacgatatccaactctaactccgtactgcag

Basic information

species	Zea mays
transcript	GRMZM2G149843_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G149843_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g06540.2 (Oryza sativa), 5'ss of exon 1

GAACGATGAGTTCTCCAGAGTGCTCCATCAGCAAATGGAGTTCTTCTCCAGCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcaccttcccttcccatcaaaccgagtaaatgtctgttccgtctctctggtacgatatccaactctaactccgtact-gcag-------
||||||||||||||| || || ||||||||||||||||||| ||||||||||||||| ||||||||||||||||||||||||||||| |||||||| |||||||| | | |   |    ||          | |  |   || | | | |    ||| ||      |||   || |  ||| |||        
GAACGATGAGTTCTCTAGGGTCCTCCATCAGCAAATGGAGTACTTCTCCAGCAACCCCAGCGCCGACACACTCAACCGTCTCCGTGGGGAAGTCAGTGAGgcaagtatcctatttatttattgccttccacacaatttcctttcatttttgctctacaatcaaatgctcattcttccaacttgcattgtgcag

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|15198942|gb|BI423572.1|BI423572

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|78090244|gb|DV518618.1|DV518618

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|93282853|gb|EB675117.1|EB675117

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|91050464|gb|EB160882.1|EB160882

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGCCGACAACATAGAGAAAATTCTTGACAGAAGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211398006|gb|FL167601.1|FL167601

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211395387|gb|FL167591.1|FL167591

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGANCA-CATAGAGAAAATTCTTGACAGAGGCGA
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGA-CAACATAGAGAAAATTCTTGACAGAGGCGA

EST: gi|211395384|gb|FL167588.1|FL167588

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|78077927|gb|DV506349.1|DV506349

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211395376|gb|FL167580.1|FL167580

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211397999|gb|FL167594.1|FL167594

EST:     GCAACCCAAGCGCCGACACACTCAACCGTYTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGMCAACATAGAGAAAATTCTTGANAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|60672326|gb|DN475088.1|DN475088

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|60393990|gb|DN226860.1|DN226860

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|71298112|gb|DR785033.1|DR785033

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|148997924|gb|EE035912.2|EE035912

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAANATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211398010|gb|FL167605.1|FL167605

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACCAGAGGCGA
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGAC-AGAGGCGA

EST: gi|71448766|gb|DR829816.1|DR829816

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|60401449|gb|DN234256.1|DN234256

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211398003|gb|FL167598.1|FL167598

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|94479642|gb|EB708600.1|EB708600

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|32803614|gb|CD955850.1|CD955850

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211022376|gb|FL167612.1|FL167612

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|76930491|gb|DV172407.1|DV172407

EST:     CCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: CCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|93013841|gb|EB639361.1|EB639361

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211397998|gb|FL167593.1|FL167593

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|93282854|gb|EB675118.1|EB675118

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|211395377|gb|FL167581.1|FL167581

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         RTACACCACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGA
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACAC-ACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGA

EST: gi|71424443|gb|DR806311.1|DR806311

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|71436666|gb|DR817716.1|DR817716

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|78090245|gb|DV518619.1|DV518619

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

EST: gi|76930492|gb|DV172408.1|DV172408

EST:     GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAG                         ATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT
genomic: GCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGAT

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: 48 (upstream exon), 49 (downstream exon)
Score: 99

GAACGATGAGTTCTCCAGAGTGCTCCATCAGCAAATGGAGTTCTTCTCCAGCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcacct ... cgtactgcagATACACACCGTCATGGTCGACAACATAGAGAAAATTCTTGACAGAGGCGATCGCATCTCGCTCCTTGTCGACAAGACATCCACCATGCAAGACAGCGCCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 159

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 183

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 132

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACGATGAGTTCTCCAGAGTGCTCCATCAGCAAATGGAGTTCTTCTCCAGCAACCCAAGCGCCGACACACTCAACCGTCTCCGTGGAGAAGTCAGCGAGgcaagcaccttcccttcccatcaaaccgagtaaatgtctgttccgtctctctggtacgatatccaactctaactccgtactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT