ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGAATTGCGAACTCTTTCATGCACTTACAAGTGCCGTCATGATGCTGCTGCAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaaccttattacttactgggaaaatgatggttgtgatttttccatctgttctttagagctgactcaagtatggctgtgtgcag

Basic information

species	Zea mays
transcript	GRMZM5G812144_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G812144_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os08g08210.1 (Oryza sativa), 5'ss of exon 14

TGAATTGCGAACTCTTTCATGCACTTACAAGTGCCGTCATGATGCTGCTGCAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaaccttattacttactgggaaaatgatggttgtgatttttccatctgttctttagagctgactcaagtatggctgtgtgcag
|||  || |||||||||||||||| |||||||| || |||||||||||||| |||||||||||  |||||||||| |||||||| || ||| ||||||| |||||| ||| |||  |  | | |  | ||   ||| ||||||||||||  ||||| |   ||  |||||||||| ||  |    |||||
TGAGCTGAGAACTCTTTCATGCACATACAAGTGTCGGCATGATGCTGCTGCTGATTTGATTCACATGTATGCTTACACAAAGTGTTTTTTCAGAGTCCGAgtaagtgaaaacttcctcttaattttgcaacaaatgtttgtgatttttc--tctgtaccaaaggactgactcaaggatcaccacatgcag

upper sequence: GRMZM5G812144_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G45740.1 (Glycine max), 5'ss of exon 20

TGAATTGCGAACTCTTTCATGCACTTACAAGTGCCGTCATGATGCTGCTGCAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaacctt--attacttactgggaaaatgatggttgtgatttttcc------atctgttct--ttagagctgactcaagtatggctgtgtgcag
|||  | ||||  ||| | || || ||||| || || |||||||||||||| || || |||||| | ||||||||||| |||| ||||||  || | | |||| ||  |||  |  ||  |  |   | | |||   | ||   | |||||       |||  ||||  ||     | |||  | | |   |   |||||
TGAGGTTCGAAACCTTCCTTGTACATACAAATGTCGGCATGATGCTGCTGCTGACTTAATTCATATTTATGCTTATACCAAGTACTTCTTTAGAATACAGgtatgttcaacaatgaatgtccaagctgtataatatagtttaaaagttttcttctcttatcatttctaatttttatttactataattttttttcatgcag

upper sequence: GRMZM5G812144_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA12G11060.1 (Glycine max), 5'ss of exon 22

TGAATTGCGAACTCTTTCATGCACTTACAAGTGCCGTCATGATGCTGCTGCAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaacctt-attactta---ctgggaaaatgatggttgtgatttttccatctgttctttagagctgactcaagta--tggctgtgtgcag
|||  | ||||  ||| | || || ||||| ||||| |||||||||||||| || || |||||| | ||||||||||| |||| ||||||  || | | |||| ||   ||  | | |   ||    |   || ||  ||     | ||||| |  |  ||  | |    |   |  | ||  |   |   |||||
TGAGGTTCGAAACCTTCCTTGTACATACAAATGCCGGCATGATGCTGCTGCTGACTTAATTCATATTTATGCTTATACCAAGTACTTCTTTAGAATACAGgtatgttctacagtgaatgtctaagctttataatatagtgtaaaagtttttttctgccatttgtaatttttatttacaataatttttttcatgcag

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|76285995|gb|DV025563.1|DV025563

EST:     CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGG                         GATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA
genomic: CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaa ... ctgtgtgcagGATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA

EST: gi|211478188|gb|FL010628.1|FL010628

EST:     CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGG                         GATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA
genomic: CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaa ... ctgtgtgcagGATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA

EST: gi|60672647|gb|DN475345.1|DN475345

EST:     CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGG                         GATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCCTGACTTA
genomic: CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaa ... ctgtgtgcagGATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA

EST: gi|6851505|gb|AW352515.1|AW352515

EST:     CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGG                         GATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA
genomic: CAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaa ... ctgtgtgcagGATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTA

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: 124

TGAATTGCGAACTCTTTCATGCACTTACAAGTGCCGTCATGATGCTGCTGCAGATTTGATTCATTTGTATGCTTATACAAAGTGCTTCTTCCGAGTCCGGgtaagtaaaa ... ctgtgtgcagGATTATAAGACAGTAAAATCTCCACCAGTTCATATCAGTCCGCTTGACTTAGGCCCCAAATATGCTGATAAACTGGGACCAGGCTTTCAGGAGTACTGCA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 65

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 98