ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAACAGCTACATCTCCGTTGGTGCTTCTGGAGCTCTATTTGGCCTGCTGGGATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaagcaataaatgaataacattttattttatccagttgattgataatcgcttagctcatctacttaatttgctcttgcag

Basic information

species	Zea mays
transcript	GRMZM2G116514_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G116514_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os09g35730.1 (Oryza sativa), 5'ss of exon 3

GAACAGCTACATCTCCGTTGGTGCTTCTGGAGCTCTATTTGGCCTGCTGGGATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaagcaataaatgaata-acattttattttatccagttgattgataatcgcttagctcatctacttaatttgctcttgcag
 || | ||||||||| ||||| || ||||||||| ||||||| ||||| ||||| ||||||||||| ||  | |||||||||||||| || ||||||||||  |||| | |  ||| ||| | | |||||||    ||| |||||| |||||  | | || | |||   |  ||||   |||||||||
TAATAACTACATCTCTGTTGGAGCCTCTGGAGCTTTATTTGGACTGCTTGGATCAATGCTTTCTGAGCTTATTATGAACTGGACTATTTATTCCAACAAGgttagtaaatgagatagatgcacatacatttt-cactattcagttgcttgatgtttgttttgatca---agctaatccactcttgcag

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|32916798|gb|CF021610.1|CF021610

EST:     TACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: TACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|76286368|gb|DV025936.1|DV025936

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|78075432|gb|DV503866.1|DV503866

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|32862952|gb|CF002634.1|CF002634

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAA-TTGTCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|67024823|gb|CO453572.1|CO453572

EST:     GATCCATGCTTTCTGAACTACTTATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|88749438|gb|DY533579.1|DY533579

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|148967077|gb|EE018244.2|EE018244

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|32795657|gb|CD947893.1|CD947893

EST:     GATCCGTGC-TTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|116821652|gb|EC864979.1|EC864979

EST:     GATCCATGCTTTCTGAACTACTTATGAACTGGACTATATACTCCAACAAG                         GCATCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|71319572|gb|DR796532.1|DR796532

EST:     GATCCATGCTTTCTGACCTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATT

EST: gi|148967078|gb|EE018245.2|EE018245

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACT

EST: gi|32915209|gb|CF020021.1|CF020021

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|78075433|gb|DV503867.1|DV503867

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|18180175|gb|BM381385.1|BM381385

EST:     CTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: CTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|148982101|gb|EE028150.2|EE028150

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|88748281|gb|DY532422.1|DY532422

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|71764175|gb|DR962112.1|DR962112

EST:     GATCCATGCTTTTTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|26558680|gb|CA830915.1|CA830915

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|76020120|gb|DT947290.1|DT947290

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|71309283|gb|DR790928.1|DR790928

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|88753239|gb|DY537380.1|DY537380

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|5006174|gb|AI712236.1|AI712236

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|101386350|gb|EB815194.1|EB815194

EST:     TCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: TCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

EST: gi|71764176|gb|DR962113.1|DR962113

EST:     GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAG                         GCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT
genomic: GATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATT

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: 113

GAACAGCTACATCTCCGTTGGTGCTTCTGGAGCTCTATTTGGCCTGCTGGGATCCATGCTTTCTGAACTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaa ... gctcttgcagGCAGCAGCTATAATAACACTGTTGTTTATTATTGCACTCAATTTGGCTATTGGGATACTACCTCACGTTGACAACTTTGCTCACATTGGTGGATTCGCGA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 199

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 262