ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGTTCAAGCTGAATTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagcttgcaaatttgtattctattcatgtcaacttgctacttttcaaagcttcacattttatggatccatctatggggatataaattctttgtag...

Basic information

species	Zea mays
transcript	AC182617.3_FGT001
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AC182617.3_FGT001 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 5'ss of exon 5

TGTTCAAGCTGAATTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagcttgcaaatttgtattctattcatgtcaacttgctacttttcaaagc--ttcacattttatggatccatctatggggatat---aaattctttgtag
||| |||||||| ||||||||||| |||| ||||||||| || || |||||||||||||| || || || ||||||||||||||  |||| ||| | ||||||||   ||||||| ||  ||||||  |  | | || || |    | ||||| |  || | ||             ||||    ||||   ||||| ||     
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|149103897|gb|EE289312.2|EE289312

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCNAATGAGTTAAAG                         GTATTGCAGGTCG
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCG

EST: gi|148932662|gb|EC876592.2|EC876592

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCNAATGAGTTAAAG                         GT----C-G----ACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG

EST: gi|149014406|gb|EE044007.2|EE044007

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAG                         GTATTGCAGGTCGACGATTTAAAACTTA
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTA

EST: gi|74235623|gb|DT643537.1|DT643537

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAG                         GTATTGCAGGTCGA
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGA

EST: gi|71757461|gb|DR955398.1|DR955398

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAG                         GTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG

EST: gi|148930368|gb|EE284809.2|EE284809

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAG                         GTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG

EST: gi|32863340|gb|CF003022.1|CF003022

EST:     TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAG                         GTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG
genomic: TTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAG

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: 47 (upstream exon), 49 (downstream exon)
Score: 256

TGTTCAAGCTGAATTGGCAGTTGAGGGCTTAACATGGCATGTCACATGTGTTAGCATGGGAAACCCTCACTGTGTCACATTTGGTGCAAATGAGTTAAAGgtaatcagct ... actcctgcagGTATTGCAGGTCGACGATTTAAAACTTAGCGAAATTGGGCCTAAATTTGAGCATCATGAAATGTTTCCTGCTCGCACAAACACAG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 207

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 181