ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATCAAAATCTATCAACTTGGTGCACACACGGAGAAATCTTGTTGAGAATGACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgcattttatttacctttttagttcttttgcagatcctaaagggcaggcccggtgtagtggtgagagctatctcaccgagtcacctggttgcag...

Basic information

species	Zea mays
transcript	GRMZM2G116196_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G116196_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os09g21780.1 (Oryza sativa), 5'ss of exon 8

TATCAAAATCTATCAACTTGGTGCACACACGGAGAAATCTTGTTGAGAATGACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca-ttttatttacctttttagttcttttgcagatcctaaagggcaggcccggtgtagtggtgagagctatctcaccgagtcacctg-gttgcag--
|||||||  |||| || ||||||||||| ||||||||||| ||||||||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||||  || | ||||| |||   |||   ||  ||  ||     ||          || |  |||   ||  |  ||    |     |  | || ||  |||  
TATCAAAGGCTATTAATTTGGTGCACACGCGGAGAAATCTGGTTGAGAATGATCGTGTTTTGCTGAACCGAGCACATCGTGCTCAACAGGAATATGAAAGgtacgctgaaattttacttaatctttgtctttcttcacaatagatatttactgaatccagc-tagaactgtaacataa---aggagatgtcttgtgtatcagtg

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|37394434|gb|CF634491.1|CF634491

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|67012513|gb|CO441262.1|CO441262

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGTGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|32943202|gb|CF048021.1|CF048021

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|76287604|gb|DV027172.1|DV027172

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|60398088|gb|DN230904.1|DN230904

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|211028058|gb|FL201182.1|FL201182

EST:     ACCCGTGTTT-GCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCNTAAAATTAGCTGGCGAAACA-GAAAAG-TGGTG
genomic: ACC-GTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAA-TTAGCTGGCGAA-CAAGAAAAGGTGGTG

EST: gi|94477850|gb|EB706808.1|EB706808

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|32832662|gb|CD972340.1|CD972340

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

EST: gi|91878608|gb|EB408565.1|EB408565

EST:     GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAG                         AGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG
genomic: GACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAG

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: 93

TATCAAAATCTATCAACTTGGTGCACACACGGAGAAATCTTGTTGAGAATGACCGTGTTTTGCTGAACCGTGCACATCGTGCTCAACAAGAATATGAAAGgtacattgca ... ctttgtgtagAGTGGCCAACTATTGTCTTAAATTAGCTGGCGAACAAGAAAAGGTGGTGAGTGAAAGATGGCTTCCGGAACTGAGAAATGCAGTTCAAGAAGCTCGAAGG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 20

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 19