ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacattttctttattattttcaaacctgagaggttttactgcgtttattttgcag

Basic information

species	Zea mays
transcript	GRMZM2G090172_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g50440.1 (Oryza sativa), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacattttctttattattttcaaacctga-gaggttttac--tgcgtttattttgcag
||||||||||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||| |||||||| || | ||  ||||||    |||||   | | ||||| |||   |||  ||||||   | ||  ||||||  |   ||| | ||||||
TGAGAAGGGCATTGGTGATGGGACAGTGAGCTATGGAATGGATGATGCTGATGACATATATATGCGTTCCTGGACAGGAACTATCATTGGCCCTCCTAATgtatgttgtataa-cacccattagtagatattaactgcatttgcttctgtatgctcaaactgaatgatcttttacattcaatttgtcttgcag

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G24950.4 (Glycine max), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcaga--aatacc-----catagtgagatacataatacattttctttattattttcaaacctgagaggttttactgcgtttattttgcag---
||||||||| ||||| ||||||||||| |||||||| ||||||||||||||||||||||| ||||  || ||||| || |||||||| ||||| || | |||| | ||| |     ||       || | ||  || |  |    |  | | |  ||  ||  |   |  ||    | |  ||  |||   | |  |   
TGAGAAGGGAATTGGGGATGGAACTGTTAGCTATGGAATGGATGATGCTGATGACATATACATGCAATCTTGGACTGGGACTATCATCGGTCCCCCTAGTgtaagttgctgtctgttatttttgacacattggaatccccagctaacatccctatttgcttctatgacaaagtaaatattttgaatttcagtgggggctt

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G04710.1 (Glycine max), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtga----gataca-taatacattttctttattattttcaaacctgagaggttttactgcgtttat---tttgcag--
||||||||| ||||| ||||||||||| ||||| || ||||||||||||||||| || || |||| ||||||||| || ||||| ||||| || ||   |||| |||       |      ||  |    | |||| | |||   | | |  |  |||    ||| |   |  |||       ||||    | | | |  
TGAGAAGGGAATTGGAGATGGAACTGTTAGCTACGGAATGGATGATGCTGATGATATCTACATGCAGTCCTGGACTGGGACTATTATTGGCCCCCCTGGTgtaagcttttctgttctttggagaaattctgttacaatgataacatctttgcaaaattgcagaacttattatttttatagaaatttaagagtctacggct

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G35000.1 (Glycine max), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatag----tgagatac-ataatacattttctttattattttcaaacctgagaggttttactgcgtttat----tttgcag-
||||||||| ||||| ||||||||||| |||||||| ||||||||||||||||| || || |||| ||||||||| || ||||| ||||| || ||   |||| ||||      |      |     || | ||| || | |   | | |  |  ||| |  ||| |   |  |||       |||||    |||     
TGAGAAGGGAATTGGAGATGGAACTGTTAGCTATGGAATGGATGATGCTGATGATATCTACATGCAGTCCTGGACTGGGACTATTATTGGCCCCCCTGGTgtaagctgtcctgttctttggaaaaattgtgttactatgaaaacctctttgcaaaattgtagaacttactatttttatagaaatttatgagttttatcaa

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA09G22600.1 (Glycine max), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacattttcttt------attattttcaa-acctgagaggttttactgcgtttattttgcag------
||||||||| ||||| ||||||||||| |||||||| |||||||| ||||| |||||||| ||||  || ||||| || ||||||||||| || ||   |||| |||||        |  |  ||| ||| |||||  |||||  ||       |||||||  | || |  ||   |  |       |   |  |||      
TGAGAAGGGAATTGGGGATGGAACTGTTAGCTATGGAATGGATGACGCTGACGACATATACATGCAATCTTGGACTGGGACTATCATTGGGCCCCCTGGTgtaagctgctct--ctgcttttctgaaata-ataatttatttttcttttattagttatttttgacacattggaatctccagctaacatccctatcagcttcta

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT1G23260.1 (Arabidopsis thaliana), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatag-tgagatacataatacattttctttattattttcaaacctgagaggt--tttactgcgtttattttgcag---------
|||||| || ||||| ||||| ||||| |||||||| ||||||||||||||||| || |||||||  || ||||| || || ||  |||||||||| |||||||| |       || | ||   |||| |   |  || ||||  | | |  ||   | |    ||| |   |||    |  || | |   ||         
TGAGAAAGGTATTGGAGATGGTACTGTTAGCTATGGAATGGATGATGCTGATGATATTTATATGCAATCTTGGACTGGCACCATTCTTGGTCCTCCTAATgtatg-tatctctctatcgatctctgagttttgttttagattta-tctgtgtttgatagagtaaagatgcaatttttaacacttttgtgagagaattgttgg

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT1G70660.1 (Arabidopsis thaliana), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacatttt-ctttattattttcaaacctgagaggttttactgcg--tttattttgcag-------
|||||| || ||||| ||||| || ||||| ||||| ||||||||||||||||| || |  ||||  || ||||| || || ||  |||||||||  |||||  | |       |  | ||       | |||  |   |||  ||| | |  |   |    ||  || ||| | |     |  |||||  |        
TGAGAAAGGAATTGGAGATGGGACAGTGAGTTATGGAATGGATGATGCTGATGATATTTTGATGCAATCTTGGACTGGTACCATTCTTGGTCCTCATAATgttagttttcttcttctcaatctatctcttcatcttttgtttaacttaaatgataatatctatggtagatttgaataaagatgcattttttaatgctaaa

upper sequence: GRMZM2G090172_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 2

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgcagaaatacccatagtgagatacataatacatt---ttctttattattttcaaacctgag--aggttttactgcgtttattttgcag--------
 || ||||| ||||| ||||||||||| || ||||| ||||||||||||||||| ||||| |||| ||| ||||| || ||||||||||||||||| |||||  | |       |   || |   |  | ||| ||| | |    || |||    ||  |   || |   || | |||  |  ||||| | |  |        
GGAAAAGGGAATTGGCGATGGAACTGTCAGTTATGGAATGGATGATGCTGATGATATATACATGCAGTCGTGGACTGGGACTATCATTGGTCCTCCTAATgtgagttttttcttt-ttcaca-caattttcatgatataatgaactccttacaggttgaatctctcaactagatgttaa-gaatttatgtggttggtattatc

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|211187615|gb|FL186093.1|FL186093

EST:     ATGACATATATATCCTGTCCTGGAYAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211185215|gb|FL186078.1|FL186078

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211185214|gb|FL186077.1|FL186077

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211187617|gb|FL186095.1|FL186095

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|32788418|gb|CD940654.1|CD940654

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATAATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTA
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTA

EST: gi|211187616|gb|FL186094.1|FL186094

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211185223|gb|FL186086.1|FL186086

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211187612|gb|FL186090.1|FL186090

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|211185219|gb|FL186082.1|FL186082

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|71758996|gb|DR956933.1|DR956933

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGAGGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

EST: gi|71438019|gb|DR819069.1|DR819069

EST:     ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAAT                         ACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT
genomic: ATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGAT

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), 47 (downstream exon)
Score: 133

TGAGAAGGGCATTGGTGATGGAACTGTGAGCTATGGGATGGATGATGCTGATGACATATATATGCGGTCCTGGACAGGAACTATCATTGGTCCTCCCAATgtatgctgca ... tattttgcagACTGTTCACGAGGGACGAATCTACCAATTAAAGCTGTTTTGTGATACGGATTATCCAGATAAACCACCGACAGTCCGATTCCAGACTCGGATCAATATGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 120

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 73