ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaattttcttctcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat...

Basic information

species	Zea mays
transcript	GRMZM2G115420_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA02G08360.1 (Glycine max), 5'ss of exon 8

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaattttcttctcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat---
 ||||| ||||| || |||||||||||||| || ||||| || ||||| |||||  | ||||| |||||||||||||| ||||||||| | || || |||||| ||  | | |      ||||    |||         | | |   | |       | || | ||   ||||||||            || |  |   |   
CTTTGGGTATGGTATAATGCTTCTGGAGCTAATCACTGGACAAAGGGCTTTTGACTTGGCTCGACTTGCAAATGATGATGATGTTATGTTGCTGGATTGGgtatgttgactataaaag-aatatccttgtgtttttttttttaattatat--ttacctttactgttgaatttcatacgacccctaagtaattgttttccttct

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA20G31320.1 (Glycine max), 5'ss of exon 10

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagt-------aaattttcttctcaatacaagtgtcacacacagtattaccgtgtgac-agattatatttttttctttcatactttttgctgtctatgggctatat
|||||| ||||| ||||||||||||||||| || ||||| ||||| || ||||| || ||||| || || ||||| || ||||||||||| ||||| |||||| ||       |||  |   ||    |     | |     | | | ||||| ||     | |||  ||    | | |  | | | ||  ||     | |||| |  
TTTTGGTTATGGTATCATGCTTCTGGAGCTGATAACTGGACAGAGAGCTTTTGACCTTGCTCGACTCGCTAATGACGATGATGTTATGCTGCTTGATTGGgtatgtttagtgtaaaagtatatccttgtgtttttattttttataat-ttaccctgcagttaaattccatgcaatccctcaaaattgttgact-----taggctgt--

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA10G36280.1 (Glycine max), 5'ss of exon 10

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagt-------aaattttcttctcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat
|||||| ||||| ||||||||||||||||| || ||||| ||||| || ||||| || ||||| || || ||||| || ||||||||||| ||||| |||||| ||       ||| ||   ||    |     | | |   |  || ||||| ||      |      |     |  ||||| || |||  ||  |     |    
TTTTGGTTATGGTATCATGCTTCTGGAGCTGATCACTGGACAGAGAGCTTTTGACCTTGCTCGACTCGCTAATGACGATGATGTTATGCTGCTTGATTGGgtatgttgagtggaaaattatatccttgtgtttttattatttatggt-ttaccttgcagttaaagtccatccaacccctcataattgttggagt--accaatt----

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT1G34210.1 (Arabidopsis thaliana), 5'ss of exon 10

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaattttcttctcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat
||||||||| |||||||||||| |||| || ||||| || ||||| || |||||||| ||  | || || ||||| || || |||||||| || || ||||||   | |      | | |  |||  | |  |   |     |  |      | |||| ||| | ||  |||  |  | |  |                 
TTTTGGCTACGGGATCATGCTTTTGGAACTGATTACAGGTCAGAGAGCTTTTGATCTTGCAAGACTGGCGAATGACGATGACGTTATGCTCCTAGATTGGgtata-acacagatcttttagcacatatctggctatc-----tctcaaaaagctgatt-tatctgttcatttggtcttctcag-----------------

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv07s0031g01410.t01 (Vitis vinifera), 5'ss of exon 10

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaattttcttc-tcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat-
|||||| ||||| || |||||| | ||||| |||||||| ||||||||||||||||| ||||| |||||||||||||| ||||| ||||| ||||| |||||| | |  | | ||   |   | | | | | |   |   ||||    | ||  |   | |    | |    |||| |||    |   | |||| |    | 
TTTTGGTTATGGAATTATGCTTTTAGAGCTAATTACTGGACAGAGGGCATTTGATCTTGCTCGACTTGCAAATGATGATGATGTCATGCTGCTTGATTGGgtatgcatttatcctcagttctttctattatta-gtattttatttgaatatggtaaggtct-ccatatatggtcattcttcccccaagcaatggtcgccttt

upper sequence: GRMZM2G115420_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv18s0164g00070.t01 (Vitis vinifera), 5'ss of exon 10

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagta-----aattttcttctcaatacaagtgtcacacacagtattaccgtgtgacagattatatttttttctttcatactttttgctgtctatgggctatat
||| || ||||| || |||||||||||||| || ||||| ||||| || |||||||| ||||| ||||| |||||||| ||||| ||| | ||||| |||||||| |        ||| | | |  || |    | | ||    || | ||   |     | ||| ||||   ||  ||   |   |||  ||| |    ||   
TTTCGGGTATGGAATTATGCTTCTGGAGCTAATCACTGGGCAGAGAGCTTTTGATCTTGCTCGGCTTGCCAATGATGATGATGTCATGTTGCTTGATTGGgtaagcattactgtctttttccaccctatactgattagaccacttactgccccctttgccagtattttttaagctaacaggataaatgccatcttt--ctta---

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|32910294|gb|CF015106.1|CF015106

EST:     TTGATCTAGCTCGTCTTGCAAATGATGATGATGTTATGCTTCTTGACTGG                         GTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT
genomic: TTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaat ... catcttgcagGTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT

EST: gi|74235278|gb|DT643192.1|DT643192

EST:     TTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGG                         GTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT
genomic: TTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaat ... catcttgcagGTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT

EST: gi|16925542|gb|BM078610.1|BM078610

EST:     TTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGG                         GTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT
genomic: TTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaat ... catcttgcagGTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGAT

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: 762

TTTTGGCTATGGGATCATGCTTCTGGAGCTTATTACTGGCCAGAGGGCATTTGATCTAGCTCGTCTTGCAAATGATGACGATGTTATGCTTCTTGACTGGgtaagtaaat ... catcttgcagGTGAAAGGACTGTTGAAGGAGAAGAAGGTGGAGATGCTGGTGGACCCAGATCTGCAGAAAGCCTACGAGGAGGTCGAGGTGGAGAGCCTTATTCAGGTGG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 824

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 745