ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGATTCCCAACACCTTGAATGTGATCTCAAACATCCCTTTCTTCTTTGTTGGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaattgctcgctgctcctaccaaatgattccctgtcctgagtcctggctcaatgcactctgatggtaatctcgctgccag

Basic information

species	Zea mays
transcript	GRMZM2G147709_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G147709_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g73120.1 (Oryza sativa), 5'ss of exon 2

GGATTCCCAACACCTTGAATGTGATCTCAAACATCCCTTTCTTCTTTGTTGGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaattgctcgctgctcctaccaaatgattccctgtcctgagtcctggctcaatgcactctgatggtaatct--cgctgccag----
|||| ||||| ||  |||||||||| ||||||||||| ||||| ||||| || |||   |||||| || ||||||| | ||| ||||| |||||||||| ||  |  |    |    | || |          | |   | ||   |      |  |||||||||| || ||| ||  | || || |    
GGATCCCCAATACGCTGAATGTGATTTCAAACATCCCCTTCTTTTTTGTGGGTGTCGTTGGGCTCGTCTTGTGCCATTACAAAAACTACTTCAGGCTAAAgt--tagaccattactggttcat---------cttctaattctagttaagattttgatgcactctgttgttaaccttccccttcctggcag

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|60352475|gb|DN219448.1|DN219448

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|211225144|gb|FL356495.1|FL356495

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|211166572|gb|FK969120.1|FK969120

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|211218284|gb|FL207814.1|FL207814

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|211515170|gb|FL354450.1|FL354450

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGCGAGCTCTGGMGTTGGACGCTGTTCTTTGCTGGTGTCACGG
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGG-GAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGG

EST: gi|211166571|gb|FK969119.1|FK969119

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|211049503|gb|FL332054.1|FL332054

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|12046333|gb|BF728472.1|BF728472

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|12045665|gb|BF727804.1|BF727804

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

EST: gi|78180036|gb|DV550409.1|DV550409

EST:     GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAG                         CTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC
genomic: GGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGC

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: 45 (upstream exon), 48 (downstream exon)
Score: 35

GGATTCCCAACACCTTGAATGTGATCTCAAACATCCCTTTCTTCTTTGTTGGCGTCACGGGGCTCATCCTGTGCCACTTCAACAACTATTTCAGGCTAAGgtgctgaatt ... tcgctgccagCTCGCAGGGGGAGCTCTGGAGTTGGACGCTGTTCTTTGCTGGTGTCACGGCTGTTGGATTTGGTTCTTCCTATTATCATCTCAACCCGAATGACGCCACC

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 56

Block sizes: 47 (upstream exon), 45 (downstream exon)
Score: 68