ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATCAAGTACAGAAATATGACTCCTGAAGTAGCTTTGGATCATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcctgactttcttggcagctttctattacatgattattacatatactctatgaattttattactcatacacttggtctccaattctgtgatccagttgctgaaatatgatactttactgcag

Basic information

species	Zea mays
transcript	GRMZM2G031435_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G031435_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g44910.1 (Oryza sativa), 5'ss of exon 5

ATCAAGTACAGAAATATGACTCCTGAAGTAGCTTTGGATCATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcctgactt--tcttggcagctttctattacatgattatt-acatatactctatgaattttattactcatacacttggtctcc--aattctgtgatccagttgctgaaatatga-tactttactgcag
|| |||||||| || |||||||||||||  ||||| ||||||||  ||||||| ||||| ||||| |||||||| ||  | || ||||||||| ||  |  ||||  |||     ||||||   | |  | | | | ||  ||     |  | |  | |    |||| | || |   ||  || | | ||||  | || ||      |   | |||| || |||
ATTAAGTACAGGAACATGACTCCTGAAGCTGCTTTAGATCATGCACGGTCTGTAAGGCCCAGAGTACTTTTAGCACCATCTCAATGGCAGgcatgcaacccacttaatctcttatgctttcgtgtgctagttgaatgacgaattgataaacactgctctggtccatataattagatccctgaagtttctgataaattttcttgttcgtttcttctttgctacag

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|93284231|gb|EB676495.1|EB676495

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

EST: gi|19057494|gb|BM736161.1|BM736161

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

EST: gi|78103952|gb|DV522370.1|DV522370

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCACCGCTAGATGCCTTTCCCTACCGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

EST: gi|71430075|gb|DR811125.1|DR811125

EST:     ATGCGAGGTCTGTGAGGGCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTTAAATGTTCAGCAAGCTCAACGCTAGATGCCTT
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTT

EST: gi|76288945|gb|DV028513.1|DV028513

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

EST: gi|87152319|gb|DY397108.1|DY397108

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

EST: gi|22491044|gb|BU050967.1|BU050967

EST:     ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAG                         GCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC
genomic: ATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGC

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), 47 (downstream exon)
Score: 75

ATCAAGTACAGAAATATGACTCCTGAAGTAGCTTTGGATCATGCGAGGTCTGTGAGGCCTAGAGTGCTTTTAGCGCCCGCACAGTGGCAGgcacgctcct ... tttactgcagGCCGTTAAAATGTTCAGCAAGCTCAACGCTAGATGCCTTTCCATACAGAGCTCGAACCCAACTTGCTCAGCACTATCTTATGAGGAATCCAGTGAACTGT

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 55

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 38