ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGTTCATTAATCTTCAAACTGAGAAGGCTTACTGTCTTCCTGATGGATATGAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttcattgcttctaacattacatttcaatagcacttgatggctttggcaacacaggctgctaattagtgtactgttctggcag

Basic information

species	Zea mays
transcript	GRMZM2G091151_T02
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G091151_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g24250.1 (Oryza sativa), 5'ss of exon 2

TGTTCATTAATCTTCAAACTGAGAAGGCTTACTGTCTTCCTGATGGATATGAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttcattgcttctaacattacatttcaatagcacttgatggctttggcaacacaggctgctaattagtgtactgttctggcag
|||||||||| |||||||||||||| ||||||||||||||||||||||||||||| ||||||||||| || |||||||||||||||||||| || ||||||||||| |  || |   |  |  ||| | |  | ||     ||| |      || |  |||  |  | ||| |||| ||    ||||||
TGTTCATTAACCTTCAAACTGAGAAAGCTTACTGTCTTCCTGATGGATATGAGATAAATGATCCATCATTGGAAGATATTCGACATGTTCTCAACCCAAGgtgcttttctatcgtcgcccatgtta-actctagtaa----tga-gctcagagctatgcagttttttgattggtgtgct---ttggcag

upper sequence: GRMZM2G091151_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA10G08500.2 (Glycine max), 5'ss of exon 3

TGTTCATTAATCTTCAAACTGAGAAGGCTTACTGTCTTCCTGATGGATATGAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtg---cttcttcattgcttctaacattacatttcaatagcacttgatggctttggcaacacag----gctgcta-attagtgtactgtt--ctggcag------
| |  || ||||| |  ||||| || |  ||||||||||||||||| ||||| ||||||||||| || ||||| || ||||| |||||  | ||||||||||    ||  ||  ||   | |  | || | ||       || ||      ||| |||||| |     | | |||   |  |   || ||  |||| |       
TCTATATCAATCTCCGCACTGAAAAAGTCTACTGTCTTCCTGATGGTTATGAAATTAATGATCCTTCATTAGATGACATTCGTCATGTCTTAAATCCAAGgttgatctatttttttatatatggctttgctttctgcagacaatt-----ttttagcaacatatttctgtttctatggtcatcagctattggctggtaacaatgt

upper sequence: GRMZM2G091151_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G22190.1 (Glycine max), 5'ss of exon 3

TGTTCATTAATCTTCAAACTGAGAAGGCTTACTGTCTTCCTGATGGATATGAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttct-tcattgcttctaacattacatttcaatagcacttgatgg--------ctttggcaacacaggctgctaattagtgtactgttctggcag--
| |  || ||||| |  ||||| || |  ||||||||||||||||| ||||| ||||||||||| || ||||| || |||||| ||||  | ||||||||||   ||| |  ||  ||      ||  | ||     |  |||| ||          ||| |||||| |      |   ||  ||  |   |     |  
TCTATATCAATCTCCGCACTGAAAAAGTCTACTGTCTTCCTGATGGTTATGAAATTAATGATCCTTCATTAGATGACATTCGAAATGTCTTAAATCCAAGgttggtctattgttttttaactttttttaatttggctgtgcttgctgcagacaattttttagcaacatatttctgtttctatggtcatcagccattggct

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|211066153|gb|FL067272.1|FL067272

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066159|gb|FL067278.1|FL067278

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211068890|gb|FL067279.1|FL067279

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTC-CTAAAGGAGCAGGTTCTAAATCTTGACAAAAAATAAGCA
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAA-GGAGCAGGTTCTAAATCTTGACAAAAA-TAAGCA

EST: gi|211068893|gb|FL067282.1|FL067282

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTC-CTAAAGGAGCAGGTTCTAAATCTTGACAAAAAATAAGCA
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAA-GGAGCAGGTTCTAAATCTTGACAAAAA-TAAGCA

EST: gi|211066145|gb|FL067264.1|FL067264

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066152|gb|FL067271.1|FL067271

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066151|gb|FL067270.1|FL067270

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066150|gb|FL067269.1|FL067269

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066157|gb|FL067276.1|FL067276

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GGTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGNGGTCTAN
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

EST: gi|211066156|gb|FL067275.1|FL067275

EST:     GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAG                         GTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG
genomic: GAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAG

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), 48 (downstream exon)
Score: 151

TGTTCATTAATCTTCAAACTGAGAAGGCTTACTGTCTTCCTGATGGATATGAGATTAATGATCCATCGTTAGAAGATATTCGACATGTTCTGAATCCAAGgtgcttcttc ... gttctggcagGTTCACTAAGGAGCAGGTTCTAAATCTTGACAAAAATAAGCAGTGGTCTAGAGCACTTGATGGCTCCAATTATCTACCTGGAATG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 70

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 57