ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATCCAAGCTGAGTTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagcttgtaaattcatatcctattcatgtcagcttgtttcttttgaagttgcacattttatggatccatctgtgggtatatgaagtctttgttga...

Basic information

species	Zea mays
transcript	GRMZM2G130332_T03
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G130332_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 5'ss of exon 5

TATCCAAGCTGAGTTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagcttgtaaattcatatcctattcatgtcagcttgt-ttcttttgaagttgc----acattttatggatccatctgtgggtatatgaagtctttgttga
| |||||||||| ||||||||||| |||| ||||||||| || || ||||||||||||||||| || || ||||||||||||||  |||| ||| | ||||||||   |||| || ||||||| ||  |  | | |  ||   |||| |  ||   |     |    | |    | | | |     ||| | || |  ||     
TGTCCAAGCTGATTTGGCAGTTGATGGCTCAACATGGCAAGTAACCTGTGTTAGCATGGGCAATCCACATTGTGTCACATTTGGCACAAAGGAGCTCAAGgtaattgacttgcaagttcatattctcgtagttttaaattacattctgtcaaaaccgttaatatgcctaaatatttcctatacaaatatgttaaattgtt-----

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|148986800|gb|EE030596.2|EE030596

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|71324621|gb|DR799009.1|DR799009

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|71769300|gb|DR967237.1|DR967237

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|78088914|gb|DV517307.1|DV517307

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|211026296|gb|FL344450.1|FL344450

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGACCTTGCAG                 
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTT--A-A------AGgtaatcagct ... ga

EST: gi|24773782|gb|CA409036.1|CA409036

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGACCTTGCAG                 
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTT--A-A------AGgtaatcagct ... ga

EST: gi|71329026|gb|DR801212.1|DR801212

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|76014966|gb|DT942136.1|DT942136

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAGCATCATGAA
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAGCATCATGAA

EST: gi|148961806|gb|EE012586.2|EE012586

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         AACTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|71443835|gb|DR824885.1|DR824885

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|148970899|gb|EE021693.2|EE021693

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|74233526|gb|DT641440.1|DT641440

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

EST: gi|76017579|gb|DT944749.1|DT944749

EST:     TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAG                         ACCTTGCAGATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagA--T--C-GA-CGA---TTTAAAACTCAGCGAAATTGGGCCTAAATTTGAG

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: 46 (upstream exon), 48 (downstream exon)
Score: 40

TATCCAAGCTGAGTTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGCAACCCCCACTGTGTCACATTTGGGGCAAACGAGTTAAAGgtaatcagct ... gaccttgcagATCGACGATTTAAAACTCAGCGAAATTGGGCCTAAATTTGAGCATCATGAAATGTTTCCTGCTCGCACAAACACAG

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 37

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 33