ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGACTTTGCTCGCATACCCTCTCCATCCTTGTGAATGATTGTCCTGGTGTTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttttttttcgaaaaagctcttcttgttgaatatagtagcaggttaattattaacaagtgggtacttgtcag

Basic information

species	Zea mays
transcript	GRMZM2G007647_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G007647_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g39570.5 (Oryza sativa), 5'ss of exon 8

TGGACTTTGCTCGCATACCCTCTCCATCCTTGTGAATGATTGTCCTGGTGTTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttttttttcgaaaaagctcttcttgttgaatatagtagcaggttaattattaacaagtgggtact---tgtcag
||||||| | || ||||| || ||||||||||| |||||||| |||||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||     || || | ||     |     |  |  | | ||| || ||||||||    ||||    |||||
TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttttc---gaatagttattacc--tcgccgtcatgcctgattagttgttaacaagaccatactactggtcag

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|6448417|gb|AW181183.1|AW181183

EST:     TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA
genomic: TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA

EST: gi|60356357|gb|DN223330.1|DN223330

EST:     TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA
genomic: TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA

EST: gi|89247463|gb|DY619249.1|DY619249

EST:     TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTTACA-C
genomic: TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATT-ACAAC

EST: gi|211044763|gb|FL481858.1|FL481858

EST:     CAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA
genomic: CAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA

EST: gi|67022242|gb|CO450991.1|CO450991

EST:     TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA
genomic: TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA

EST: gi|89247462|gb|DY619248.1|DY619248

EST:     TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAG                         AGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA
genomic: TTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACA

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), 49 (downstream exon)
Score: 282

TGGACTTTGCTCGCATACCCTCTCCATCCTTGTGAATGATTGTCCTGGTGTTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttt ... tacttgtcagAGCCTTGCTGTTGGCTCAGCTGAGAAGGAAGGCATTTCACGTATTACAACAGTTGTTCCTGGTACTGTTGAATCCATTGGGAAGTTAGTTCAGCAGCTTT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 166

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 128