ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgcataccctagttttcttgtactagatggagcttgcttggtgctaactgtgcccggcccccttccctttgtgatgaaattgttcag

Basic information

species	Zea mays
transcript	GRMZM2G074037_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074037_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os06g40560.1 (Oryza sativa), 5'ss of exon 9

GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcg--attgcataccctagttttct---tgtactagatggagcttgcttggt--gctaactgtgcccggcccccttccctttgtgatgaaat-tg--ttcag
||||||||||| |||||| |||||||  | ||||| || || |||||||||||||| ||||| ||||| |||||||||||||| || || |||||||||||| |  ||  || || ||  | ||||   |||    |    |     |  |||  | | |  || | |  |     |  |||||||| ||||  ||  |||||
GGCTTCAATGGTGCCGATCTGCGCAATGTCTGCACTGAGGCTGGCATGGCTGCTATTCGAGCAGAGCGCGACTATGTCATTCATGAAGATTTCATGAAGgtgggttatcacaaacacttctcttctgtctgtctctgcatcaaaacacaaggttagttcatagttctcaccatttctatctttgtgacgaaaaatggtttcag

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|60341539|gb|DN208512.1|DN208512

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|78022855|gb|DV491242.1|DV491242

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|76014726|gb|DT941896.1|DT941896

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|18964891|gb|BM661269.1|BM661269

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|213188045|gb|FM184285.1|FM184285

EST:     GCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: GCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|78112489|gb|DV530883.1|DV530883

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|211416916|gb|FL328808.1|FL328808

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         -CTGTGCGCAA-CTGAATGAT-CCAANAA-CTCGAGTCCAGTGCGC-CT-C
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|6031401|gb|AW076303.1|AW076303

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|78112490|gb|DV530884.1|DV530884

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|5871518|gb|AW017989.1|AW017989

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCCCGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|60397395|gb|DN230211.1|DN230211

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|32805840|gb|CD958074.1|CD958074

EST:     CTGCTATTCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|5607728|gb|AI901395.1|AI901395

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

EST: gi|18180461|gb|BM381671.1|BM381671

EST:     CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAG                         GCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC
genomic: CTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTAC

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), 46 (downstream exon)
Score: 123

GGCTTCAATGGAGCCGATATGCGCAACTTGTGCACAGAAGCCGGCATGGCTGCTATCCGAGCGGAGCGTGACTATGTCATTCACGAGGACTTCATGAAGgtgcgattgc ... aattgttcagGCTGTGCGCAAGCTGAATGATGCCAAGAAGCTCGAGTCCAGTGCGCACTACAGTGCTGACTTCGGCAAGGATTGAACGGGGTATCAGTGTATCACCTGAT

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 122

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 184