ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TAAGGACTGGGAAAGTGATGCGAGACTTTAAGGGAAGCGCTGATGATTTTACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcataagtgctgtatttgttaaccgctgcataaacgttttcttaagttgttccagctggatgcttactatatttttacatgttcaaag

Basic information

species	Zea mays
transcript	GRMZM2G174757_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G174757_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os10g41960.1 (Oryza sativa), 5'ss of exon 7

TAAGGACTGGGAAAGTGATGCGAGACTTTAAGGGAAGCGCTGATGATTTTACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagca-taagtgctgtatttgttaaccgctgcataaacgttttcttaagttgttccagctgg--atgcttactatatttttacatgttcaaag
| |||||||| ||||||||||| |||||||| ||||| |||||||| || | | |  | || |||||  | ||||||||||||||||||||||||||||||||||  || |   |  |||||||||||     ||||| | |  ||| ||||||||||  | ||||   ||||||||||||||||   |||   |||
TGAGGACTGGCAAAGTGATGCGCGACTTTAAAGGAAGTGCTGATGAATTCAGTGCCAGTGGAAATATCAGTGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaacacactggtttttgtatttgttattgaatgcattacctctttgttaagttgttgtacctgggggtgcttactatattttt-tgtgtctgaag

upper sequence: GRMZM2G174757_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA03G00470.1 (Glycine max), 5'ss of exon 7

TAAGGACTGGGAAAGTGATGCGAGACTTTAAGGGAAGCGCTGATGATTTTACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcataagtgctgtatttgttaaccgctgcataaacgttttcttaagttgttccagctggatgcttactatatttttacatgttcaaag---
| |||||||| ||||||||| | |||||||| ||||| |||||||||||| |    || ||   |   || ||  |||| |||||||||||| |||||| || | |   |   |  | || |   || ||  ||||   |  ||| | |  ||  |      |      ||| |   | ||  |||  ||   |   
TGAGGACTGGTAAAGTGATGAGGGACTTTAAAGGAAGTGCTGATGATTTTGCAGTCGGAGGTGCTGGGGGTGTCACTGGAGTTTCATGGCCTGTTTTCAAgt-atattttttttcttttaat--ctagcccatgcaattatttttgcatttgtcatgtgtcttatgcagttattcattcttgtcattatctttgcag

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|31351129|gb|CD435486.1|CD435486

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|211218557|gb|FL110192.1|FL110192

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|22546320|gb|BU098631.1|BU098631

EST:     CTACTGGCGGGAATATTGGGGGGTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: CTACTGGCGGGAATATT-GGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|22521176|gb|BU079987.1|BU079987

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|22472476|gb|BU036956.1|BU036956

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|32841675|gb|CD981356.1|CD981356

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|32841369|gb|CD981050.1|CD981050

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAA-GGATGA-AAATATTTTGCGAGGCTTGGGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

EST: gi|60350764|gb|DN217737.1|DN217737

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGAC
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGAC

EST: gi|32841679|gb|CD981360.1|CD981360

EST:     ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAG                         GTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGNGAAGAATAT
genomic: ACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATAT

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: 342

TAAGGACTGGGAAAGTGATGCGAGACTTTAAGGGAAGCGCTGATGATTTTACTACTGGCGGGAATATTGGGGTTTCTGGTGTTTCATGGCCTATTTTCAGgtgaaagcat ... atgttcaaagGTGGGGTGGTGGAAAGGATGACAAATATTTTGCGAGGCTTGGGAAGAATATAATATCTGTATACGAAACAGATACATTCTCCCTTCTTGATAAGAAGTCT

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 210

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 169