ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGGCTCCCCGCCGATGCAGATGAGCGCGAGCTACTACGGCGCCGCGGAGCTGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagctttttgtttttgcttttgagctcctggctggcatcggccgagctgctgcgaagtggtcggggaggagtgatggctctcggcttcgtgtttgtttcgcag

Basic information

species	Zea mays
transcript	GRMZM2G032496_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G032496_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g72340.1 (Oryza sativa), 5'ss of exon 17

CGGCTCCCCGCCGATGCAGATGAGCGCGAGCTACTACGGCGCCGCGGAGCTGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagctttt------tgtttttgcttttgagctcctggctggcatcggccgagctgctgcgaagtggtcggggaggagtgatggctctcggcttcgtgtttgtttcgcag----------------------------------
||  || |||||||||||| ||||||| |||||||| |||||||||||||| ||| | || |||||   ||||| ||| || ||||| |||||||||||||||||   || |||      |||||         |   | |   ||   ||  | ||  | |    |  || |    ||   ||   |         || |  | || || |  |                                  
CGAGTCGCCGCCGATGCAGGTGAGCGCCAGCTACTATGGCGCCGCGGAGCTCGACCGCGCGACGCATAACCACAAGCTCGTCAAGGGAGACGACATCGAGgtgggttcgcatttgcactgtgtttagataaacaaaagctttattgaactcaac-gaattacattaagatgatgatagaattgtaccgataacaacttttgattgtgatttggcgatgatttcagagagaaattgggtttgtgttgcag

upper sequence: GRMZM2G032496_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g72340.2 (Oryza sativa), 5'ss of exon 17

CGGCTCCCCGCCGATGCAGATGAGCGCGAGCTACTACGGCGCCGCGGAGCTGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagctttttgtttttgcttt------tgagctcctggctggcatcggccgagctgctgcgaagtggtcggggaggagtgatggctctcggcttcgtgtttgtttcgcag----------------------------------
    || |||||||||||| ||||||| |||||||| |||||||||||||| ||| | || |||||   ||||| ||| || ||||| |||||||||||||||||   || |||    | || ||         |   | |   ||   ||  | ||  | |    |  || |    ||   ||   |         || |  | || || |  |                                  
----TCGCCGCCGATGCAGGTGAGCGCCAGCTACTATGGCGCCGCGGAGCTCGACCGCGCGACGCATAACCACAAGCTCGTCAAGGGAGACGACATCGAGGTGGgttcgcatttgcactgtgtttagataaacaaaagctttattgaactcaac-gaattacattaagatgatgatagaattgtaccgataacaacttttgattgtgatttggcgatgatttcagagagaaattgggtttgtgttgcag

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|78108005|gb|DV526423.1|DV526423

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|37381009|gb|CF627357.1|CF627357

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|78108004|gb|DV526422.1|DV526422

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|45568081|gb|CK985892.1|CK985892

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|18383597|gb|BM416797.1|BM416797

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGGCGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|60399316|gb|DN232130.1|DN232130

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|67011194|gb|CO439943.1|CO439943

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|5069972|gb|AI737937.1|AI737937

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|78091739|gb|DV520113.1|DV520113

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

EST: gi|113702739|gb|EE680243.1|EE680243

EST:     TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAG                         GTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG
genomic: TGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCG

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: 94

CGGCTCCCCGCCGATGCAGATGAGCGCGAGCTACTACGGCGCCGCGGAGCTGGACAGGGCAACGCACGTCCACAGGCTGGTGAAGGGGGACGACATCGAGgtggggaagc ... tgtttcgcagGTGCATCTTGACCACAGGCACATGGGGCTGGGCGGCGACGACAGCTGGTCGCCGTGCGTGCACGAGCAGTACCTGCTGCCGCCGACGCGGTACGCCTTCT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 145

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 136