ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagagtgacgcccgcccgctcctcccttcgctcgcttccttgctcttccgattctggcgtaccagtctcaccgcggcttggggatttgatgcggagctagttaaccagcagagctagtagcagatgcagatcacttgcttctctggtttgattttcggagtcaccatttctatttggttcgtgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCGCGGATGCCAAGGATTGGGTTTACAAGGGGGAAGGCGCCGCGAATCTTAT

Basic information

species	Zea mays
transcript	GRMZM2G067299_T02
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G067299_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g56580.1 (Oryza sativa), 3'ss of exon 1

gtaagagtgacgcccgcccgctcctcccttcgctcgcttccttgctcttccgattctggcgtaccagtctcaccgcggcttggggatttgatgcggagctagttaaccagcagagctagtagcagatgcagatcacttgcttctctggtttgattttcggagtcaccatttctatttggttcgtgt--gcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCGCGGATGCCAAGGATTGGGTTTACAAGGGGGAAGGCGCCGCGAATCTTAT----------------
                                                                                                                 ||| | |  | | | |   |   | | || ||  |  |  | |||    | ||   || |   |  |     |    ||||   |  ||   | |||||| ||   ||| |||||| | ||||||||| |  | ||||||||| |||||||||||||| || ||||| || |||||||| ||                
-------------------------------------------------------------------------------------------------------------aagcagcaattttctgttcctcctacttcgtttttc--gcctactattcctccttacttattttgaataatagaccttgaactcatacttggaagcctgcagATTCTGTGTGGGGATGGAGGTGGTTCTGCATGAGGGGGATGCCAAAGATTGGGTTTACAAAGGAGAAGGTGCAGCGAATCTAATCCTCAGCTACACTGGC

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|149107346|gb|EE189225.2|EE189225

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|78112747|gb|DV531141.1|DV531141

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|211273588|gb|FL063642.1|FL063642

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|149086246|gb|EE175786.2|EE175786

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|149079157|gb|EE168093.2|EE168093

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|71317285|gb|DR795328.1|DR795328

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|94477323|gb|EB706281.1|EB706281

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCC-CTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|71772065|gb|DR970002.1|DR970002

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

EST: gi|94473867|gb|EB702825.1|EB702825

EST:     CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTG                         TGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG
genomic: CGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCG

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: 89

ACGATCTGGTGACCCCCCCGCCGCGTCAAGCCTGCTCCTCCGGTGATCGCCGGACTGGCGGGGTAGGAACCAGCGGAGCGCAGCCCGCCTCCTTCCGCTGgtaagagtga ... tgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCGCGGATGCCAAGGATTGGGTTTACAAGGGGGAAGGCGCCGCGAATCTTAT

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 82

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 125

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 56

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gcttctctggtttgattttcggagtcaccatttctatttggttcgtgtgcctcagTGTCTGACAGCAGCAGATCCTCGATGGAGATGGATGGGGTTCTGCAAGCCGCGGATGCCAAGGATTGGGTTTACAAGGGGGAAGGCGCCGCGAATCTTAT