ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATTGGCCCTTTCCAAACCTCCAAAGGAGAGAAGGCCAAACTGAAAGTGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttacaataatgtgtttggtatagcctagctgccagtgtttctaacactttgttgtatgctacttttggatgcag

Basic information

species	Zea mays
transcript	GRMZM2G023232_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g08840.1 (Oryza sativa), 5'ss of exon 3

ATTGGCCCTTTCCAAACCTCCAAAGGAGAGAAGGCCAAACTGAAAGTGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttacaataatgtgtttggtatagcctagctgc---cagtgtttctaaca-ctttgttg--tatgctacttttggatgcag
||||||||||||||| ||  ||||   |||||||| ||| |||| |||||||   ||||||||||||||||||  ||  |  |||| |||||||| |||||||| ||  |      |  | |   | ||  ||   || ||| | |   | |||||| |  | || | |||||| ||||||
ATTGGCCCTTTCCAATCCAGCAAACCTGAGAAGGCAAAAGTGAATGTGAAAGCATGTCTCAACATCCATGGGATAGTCTCTATTGAATCAGCAATGgtaagttaaaaggaatcccatcatcttctcgagtagcacgcaatgtctttctgatctttgtgggctttggttcttttgtatgcag

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|32931686|gb|CF036498.1|CF036498

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|89251181|gb|DY622967.1|DY622967

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|32945492|gb|CF050311.1|CF050311

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|67021901|gb|CO450650.1|CO450650

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|67016035|gb|CO444784.1|CO444784

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|67025370|gb|CO454119.1|CO454119

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|18175444|gb|BM350773.1|BM350773

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|18163486|gb|BM333325.1|BM333325

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGC
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGC

EST: gi|33094410|gb|CF054404.1|CF054404

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|22520708|gb|BU079519.1|BU079519

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

EST: gi|78106114|gb|DV524532.1|DV524532

EST:     TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATA                         ATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA
genomic: TGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCA

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: 353

ATTGGCCCTTTCCAAACCTCCAAAGGAGAGAAGGCCAAACTGAAAGTGAAAGTGCGTCTCAACATCCATGGGACCGTTACAGTTGATTCAGCAATAgtaagttaca ... ttggatgcagATGCTGGAGGATGATGTGGAAGTTCCAGTTTCATCTGCAAATGAAGCTCCAAATGATACTATGAAGATGGACACAGATGATGCACCAAGTGATCCTGCTG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 151

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 159