ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGGATTGTAGAGTATATATTCATTATGAGTTCTTTTTTGCAGGATGTCTTTAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgcatctttcttctgatttaacataacagaccttatcttctcagaatccttattttgcagcagccttatgtttcctttctttggtgcag

Basic information

species	Zea mays
transcript	GRMZM2G061745_T02
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G061745_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os04g56646.1 (Oryza sativa), 5'ss of exon 8

AGGATTGTAGAGTATATATTCATTATGAGTTCTTTTTTGCAGGATGTCTTTAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgcatctttcttctgatttaacataacagaccttatcttctca----gaatccttattttgcagcagccttatgtttcctttctttggtgcag
                                          ||||| |||||||| || || ||| | || ||||| ||||| |||||||||||||||||||||    ||| ||    |  |||||  ||||  || || | | | ||     |  | ||||| ||  |   |    ||| |    ||||||  |||||
------------------------------------------GATGTGTTTAATCTGCTCCCCAATCTCAATGTAAACGAGCTTATTAAAGCCTTTGCAGgtaataacacatgttctcaccaatttactataattgagctgaacctgtcgtctgggtttcttatcttaaaatggttcgatgctaatgttctttcctgcag

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|32937292|gb|CF042111.1|CF042111

EST:     TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAG                         TGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

EST: gi|60400633|gb|DN233440.1|DN233440

EST:     TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAG                         TGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

EST: gi|32943105|gb|CF047924.1|CF047924

EST:     TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAG                         TGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

EST: gi|32932870|gb|CF037682.1|CF037682

EST:     TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAG                         TGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

EST: gi|37384435|gb|CF629288.1|CF629288

EST:     TGAACGTAAATGAGCTAATTAAAGCCTTTGCAG                         TGAAAACTAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

EST: gi|5398737|gb|AI812202.1|AI812202

EST:     TAAAGCCTTTGCAG                         TGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA
genomic: TAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGA

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: 187

AGGATTGTAGAGTATATATTCATTATGAGTTCTTTTTTGCAGGATGTCTTTAATCTCCTTCCAAATTTGAACGTAAATGAGCTAATTAAAGCCTTTGCAGgtaatcttgc ... tttggtgcagTGAAAACAAACGACATGATGTTGGTGATATACCTGTCTTCTCTGATCCGGAGCGTCATTGCGCTTCACAATTTAATCAACAATAAG

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 150

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 146