ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtacttagtcttatgtgttgcaaagcttttgaaccatacatttatatggctggctaattttatttattttg

Basic information

species	Zea mays
transcript	GRMZM5G807639_T02
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 5'ss of exon 10

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact---tagtcttatgtgttgc-aaagct---------tttg--aaccatac--atttatatggctggctaattttatttattttg----
||| |||||||||||||| || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| |||||||||||||||||    | |||| |||  |||  |||||          |||  ||   |||  || |||       |||  ||  ||||  ||||    
GACTAATTTGATGAAGCTGCGGTCTGATTATAAGGATGAGTTTGTCACCAAGCACGGTGTCAAATTGGGTCTGATGTCCTGCTTTGTCAAGgtactgaccaatcttgtgtactgctgaagctgaactattgcttggtaattttactaatatattcaatgtgctcgttccatttgctttgtcag

upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA02G46200.1 (Glycine max), 5'ss of exon 12

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtacttagtcttatgtgttgcaaagcttttgaaccatacattta--tatggctggctaattttatttattttg----------
||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| |||||||||| |||  |  ||| || |  || ||        | |    | ||    | ||  |  || ||  | |||||  |           
GACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTCAAAgtatgttttctaat-tactgaaatataaactagctgggctttctcctttgatttcctcatactttttatggtctccatgttag

upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA14G02530.1 (Glycine max), 5'ss of exon 12

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtacttagtcttat----gtgttgcaaagcttttgaaccatacatttatatggctggctaattttatttattttg----------
||| |||||||||||||| |||||||||||||| ||||  |||||   ||||||||| ||||||||||| ||||||||| ||||||| || |||  |  ||| ||    |   |  | |     ||     |   ||| |        |  |   | |||||  |           
GACTAATTTGATGAAGCTCCGTTCTGATTATAAGGATGCTTTTGTTGAAAAGCATGGAGTCAAATTGGGGCTTATGTCTGGCTTTGTGAAAgtatgttttctaattactgaagtatagactagctgggttttctctttttgatatcctcatacactttttatggtctccatgttag

upper sequence: GRMZM5G807639_T02 (Zea mays), 5'ss of exon 10
lower sequence: Vv19s0090g00750.t01 (Vitis vinifera), 5'ss of exon 7

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtacttag----tcttatgtgttgcaa-------agcttttgaaccatacatttatatggctggctaattttat-ttattttg---
|||||||||||||||||||||||||||||||||||||| |||| |   |||||||||||| || ||  |  |||||||  | ||||| ||||||   ||    || ||  ||||| ||       ||  |||| |   || |||||      |   |  |||| | |||| |||   
GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGCATTTTTTGAAAAGCATGGTGTGAAGTTAAGATTTATGTCAGGGTTTGTTAAGgtaagcagcatgtcctaaatgttgaaatttgctcagtgtttgtagttta-atttaaggatatatatgtttttgtattatattgcag

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|32935625|gb|CF040437.1|CF040437

EST:     TGAATTTGTCACAAAGCATGGTGTAAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|211354774|gb|FL462364.1|FL462364

EST:     GTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: GTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|211169877|gb|FL077606.1|FL077606

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|31349005|gb|CD433362.1|CD433362

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCCAAT-GTTAATGCTGTC
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTCA-GGCTGCTGTTTCTGCACTTCAAAACCAGCC-AATTGTTAATGCTGTC

EST: gi|60343714|gb|DN210687.1|DN210687

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|67025111|gb|CO453860.1|CO453860

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAGGCTGCTGTTTCTGCACTTCAAAAC-AGCCAATTGTTA-TGCTGTCAT
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTCAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCAT

EST: gi|6020821|gb|AW065749.1|AW065749

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|6056485|gb|AW090875.1|AW090875

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|16919656|gb|BM074297.1|BM074297

EST:     TCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTC-AGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

EST: gi|7031253|gb|AW461141.1|AW461141

EST:     TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTG                         TCAAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA
genomic: TGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTCA-GGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCA

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), 40 (downstream exon)
Score: 14

GACCAATTTGATGAAGCTTCGTTCTGATTATAAAGATGAATTTGTCACAAAGCATGGTGTCAAATTGGGTCTTATGTCTTGCTTTGtcaaggtact ... atttattttgTCAGGCTGCTGTTTCTGCACTTCAAAACCAGCCAATTGTTAATGCTGTCATTGATGGCGATGACATCATATACAGAGACTACGTAGACGTCAGTGTTGCT

Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 25

Block sizes: 48 (upstream exon), 40 (downstream exon)
Score: 10