ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGATTCCTTCTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaaccactgcacgatacttccttattggtcgttatttgtttgtttagtccataacgttgtttttgaccaccctgcttgtattttctttcag

Basic information

species	Zea mays
transcript	GRMZM5G807767_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G807767_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g50980.1 (Oryza sativa), 5'ss of exon 8

TGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGATTCCTTCTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaaccactgcacgatacttccttattggtcgttatt---tgtttgtttagtccataacgttgtttttgaccaccctgcttgtattttctttcag
|||||||| ||||| |||||||||  ||| |  |||||  | || |||||| | ||||||||||| || |||||||||||||||||||| ||||||||| ||| |||| |  | |  | |   ||||      | || |      |   || | ||   | | ||| |||  || | ||    |||            
TGGGAGCTTATAAACTTCTCGAGTGATGCCAAGATTCATCTTGACTCCTTCCTGTCGGTCTTCAACATTGCTGGCTTGCATGATGAGCTCTACCACAATGgtaggaacta--ggaacacatgaccttgcgaaccattctgcaacatgccttgattcggaacctttgatttgaactatccaatgtgttgcag-------

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|211020790|gb|FL433478.1|FL433478

EST:     CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATT                         CTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG
genomic: CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG

EST: gi|211151156|gb|FL467091.1|FL467091

EST:     CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATT                         CTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG
genomic: CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG

EST: gi|108953379|gb|EC364711.1|EC364711

EST:     CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATT                         CTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG
genomic: CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG

EST: gi|211112501|gb|FL459338.1|FL459338

EST:     CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATT                         CTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG
genomic: CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG

EST: gi|211112500|gb|FL459337.1|FL459337

EST:     CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATT                         CTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG
genomic: CTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAG

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: 105

TGGGAGCTCATAAATTTCTCGAGTCCTGCAACAATTCACATGGATTCCTTCTTATCGGTCTTCAATATCGCTGGCTTGCATGATGAGCTGTACCACAATTgtatgaacca ... tttctttcagCTGCATTGACCTCAGTAGTAGAAACCGACTTTGTGGACGGAGCAGTCGTAGCAGCAGCCAGAGCATTGCCGACATGGTCAGATGGTGATGTTCCTGCAAT

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 181

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 23