ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtgagtgccatgctactgcccagtaccgtttgcagtcgagattggaggtcaacgtagttatcgtccctgtctctgtctgtgtgtgtgcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGGTCACGGTGGCGTCGGTGGGTGACTCGCGCTGCATCCTGGACACGCAGGG

Basic information

species	Zea mays
transcript	GRMZM5G836628_T02
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G836628_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g49040.1 (Oryza sativa), 3'ss of exon 2

gtgagtgccatgctactgcccagtaccgtttgcagtcgagattggaggtcaacgtagttatcgtccctgtctctgtctgtgtgtgtgcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGGTCACGGTGGCGTCGGTGGGTGACTCGCGCTGCATCCTGGACACGCAGGG
          ||   | |  | | | |||||||  ||  || ||  |      |   |   ||   ||    |    | |        ||  | |||||||||||| || ||||| || || ||||||||| ||||||| |||||||||||||||||||| || || |||||||| ||||||||||||||||||||
---------gtgagcccggacgg-atcgtttgc--tcacgactgacgcctcttgagatccccgcaactaatacatcatcta-------ctggtcagGGGAGGTGTCGGGGACCACCGCAACGCTGGTGGTCGTCGATGGATTCACGGTCACGGTGGCGTCAGTCGGGGACTCGCGGTGCATCCTGGACACGCAGGG

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|76018331|gb|DT945501.1|DT945501

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|93012388|gb|EB637908.1|EB637908

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|148943613|gb|EC888676.2|EC888676

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|148932058|gb|EC875401.2|EC875401

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|71430183|gb|DR811233.1|DR811233

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|91876506|gb|EB406463.1|EB406463

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGGAACCCCGGCGA
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGG-AACCACGGCGA

EST: gi|211437660|gb|FL213990.1|FL213990

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGG-AGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACG

EST: gi|149109561|gb|EE190266.2|EE190266

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|148967746|gb|EE019020.2|EE019020

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|211500611|gb|FL213997.1|FL213997

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|91050128|gb|EB160546.1|EB160546

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|148958254|gb|EC904468.2|EC904468

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|149014901|gb|EE044621.2|EE044621

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|149103553|gb|EE288950.2|EE288950

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACCTCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGCTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|211500610|gb|FL213996.1|FL213996

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCAC
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCAC

EST: gi|211439135|gb|FL160132.1|FL160132

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCGGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|78110646|gb|DV529051.1|DV529051

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

EST: gi|149101969|gb|EE287481.2|EE287481

EST:     CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGG                         GGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG
genomic: CGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGG

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: 48 (upstream exon), 49 (downstream exon)
Score: 30

GCGCTGTCGCCGGACATCGGCCGCGAAGACTGGCTGCAGGCGCTGCCGCGCGCGCTCGTCGCCGGCTTCGTCAAGGCCGACATCGATTTCCAGCGCAAGGgtgagtgcca ... gcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGGTCACGGTGGCGTCGGTGGGTGACTCGCGCTGCATCCTGGACACGCAGGG

Block sizes: 40 (upstream exon), 48 (downstream exon)
Score: 32

Block sizes: 32 (upstream exon), 48 (downstream exon)
Score: 12

Block sizes: 44 (upstream exon), 48 (downstream exon)
Score: 18

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttggaggtcaacgtagttatcgtccctgtctctgtctgtgtgtgtgcctattaagGGGAGGTGTCCGGAACCACGGCGACACTGGTGGTCATCGATGGGTTCACGGTCACGGTGGCGTCGGTGGGTGACTCGCGCTGCATCCTGGACACGCAGGG