ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTTCAAGTGAAATGCTCATTGGTTTATATGGACTTTGAAGGTCGCTCTGATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTTgtatgtgaatttaatttgaaatattctttcttgtgcgtgcatggtttagattttacactttaaactaaagaatgctactttctggagcatattctttctt...

Basic information

species	Zea mays
transcript	GRMZM2G036050_T03
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G036050_T03 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os09g39590.1 (Oryza sativa), 5'ss of exon 13

GTTCAAGTGAAATGCTCATTGGTTTATATGGACTTTGAAGGTCGCTCTGATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTTgtatgtgaatttaatttgaaatattctttcttgtgcgtgcatggtttagattttacactttaaac----taaagaatg-----ctactttctggagcatattctttctt
|| ||||| || || ||||| |  |||||||||||||||||||| ||||||||||| |||||||||||  |||||||||| ||||| ||| | ||||||||| |||        | ||||||  |||  ||  || | |||| |||||  |||| | |||| ||    | |   |||     || |||  |||| |||||  |||   
GTGCAAGTCAAGTGTTCATTAGCATATATGGACTTTGAAGGTCGGTCTGATGGGCGCTCTGTAAAATCTGTTATTGCTCATGTGGCCCCATTAAAACTTgtaagtg-------ctggaaatacccttcttttagcatccatgatttaggatttagaatttatactttttgacacatgattatctccttcttggaacatatattttt--

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|60348741|gb|DN215714.1|DN215714

EST:     ATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTT                         ATCCTGGTGCATGGATCAGCTGAAGCAACTGAACATTTGAAAATGCACTGC
genomic: ATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTTgtatgtgaat ... ctttttgcagATCCTGGTGCATGGATCAGCTGAAGCAACTGAACATTTGAAAATGCACTGC

EST: gi|211178129|gb|FL062330.1|FL062330

EST:     ATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTT                         ATCCTGGTGCATGGATCAGCTGAAGCAACT
genomic: ATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTTgtatgtgaat ... ctttttgcagATCCTGGTGCATGGATCAGCTGAAGCAACT

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: 657

GTTCAAGTGAAATGCTCATTGGTTTATATGGACTTTGAAGGTCGCTCTGATGGGCGTTCTGTAAAATCAATTATTGCTCACGTGGCTCCACTGAAACTTgtatgtgaat ... ctttttgcagATCCTGGTGCATGGATCAGCTGAAGCAACTGAACATTTGAAAATGCACTGCGCAAAGAATTTAGATTTGCATGTTTATGCTCCACAGATTGAGGAAACTA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 333

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 255