ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gttggtgtttgctatcaacaaacaaatgtcgaattcattttgtttatgatactgagaaggcacaaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTGTCAC

Basic information

species	Zea mays
transcript	GRMZM2G167356_T02
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G167356_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g12850.1 (Oryza sativa), 3'ss of exon 5

gttggtgtttgctatcaacaaacaaatgtcgaattcattttgtttatgat----actgagaaggcacaaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTGTCAC
||   | || |   |  | | | |||| |  ||    || |  |||  ||    ||||| |||  |  |||||| ||||||||||| ||| ||||| ||    ||||||||| |  |||||||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||
gtacttattagacttacagataaaaatcttcaacgatttgtagttacaatgaaaactgacaagatattaaattttagATGAGTTGAGGGAGCACTTCTCCCCATATGGTAAGATTGTTGAACATCAAATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGATTTGGTTTTGTCAC

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|9255383|gb|BE345851.1|BE345851

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|148946214|gb|EC891510.2|EC891510

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|211107234|gb|FL370789.1|FL370789

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGGTGAAAGATCACTTTTCATTGTATGGTAAGGTGCTT
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTT

EST: gi|148932748|gb|EE285380.2|EE285380

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|148939672|gb|EC884331.2|EC884331

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|148935082|gb|EC879124.2|EC879124

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|71439287|gb|DR820337.1|DR820337

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|78108850|gb|DV527267.1|DV527267

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|211074280|gb|FK950693.1|FK950693

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTTCTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|71427627|gb|DR808677.1|DR808677

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

EST: gi|78076701|gb|DV505135.1|DV505135

EST:     TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAG                         ATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA
genomic: TAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGA

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: 553

GAAGTCAAGAGGACAGTTCCGAGGGAAGAGATGAATACCAAAGATGGCCCTAAGACAAGAAAGATCTTCATCGGTGGGCTACCTGCATCTCTTACTGAAGgttggtgttt ... aaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTGTCAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 373

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 403

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 324

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

caaacaaatgtcgaattcattttgtttatgatactgagaaggcacaaaatttcagATGAGTTGAAGGATCACTTTTCATTGTATGGTAAGGTGCTTGAACATCAGATAATGCTTGATCATAGCACTGGGCGTTCTAGAGGGTTTGGTTTTGTCAC