ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttccaacaaatccagaccatatacatttatctgcatctggaattgtgcctgcctttgtatattaatgctagagatatctgtagtgtcattagtca...

Basic information

species	Zea mays
transcript	GRMZM2G094699_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G094699_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g07280.1 (Oryza sativa), 5'ss of exon 3

GTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttccaacaaatccagaccatatacatttatctgcatctggaattgtgcctgcctttgtatattaatgctagagatatctgtagtgtcat-tagtca
||||| ||||| ||||| || ||||||||||||||||| ||| ||||||| || || || ||||| ||||||||||||||||||||||||||| |||  || | |  |  |  ||||| |   |||  | |  || |  || | ||  |||| |     |      ||  |||  | | | ||   |
GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATCATCAAATCGACAAATATGAAGTGTCTAACACCACCgtaagttacaatgaaactattct-tccacattaacaggcagttagggttatttcttctttgatatactgcatttgtctccatgggtacagccttgtacata

upper sequence: GRMZM2G094699_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G00610.1 (Glycine max), 5'ss of exon 3

GTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttccaacaaatccagaccatatacatttatctgcatctggaattgtgcctgcctttgtatattaatgctagagatatctgtagtgtcattagtca---
|| || || ||||| ||  | || ||||||| ||| ||| |||| || ||||| ||||| ||||| |||||||| || || ||||||||||||  | |     | |  ||  | |  || |   |  ||    ||   |  |   || | | |         | | ||    | |      ||| |   
GTTGCCGTAAATACAGTATTACAAGATGAGAGGGACTTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagtt--atctgtctctgctcaggttctgttgtggacg-ctaattttacacaagaaattctctgtagcacacccaaacatgcaaatttctggcagttattg

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|16377392|gb|BI991902.1|BI991902

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|148934854|gb|EC878899.2|EC878899

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|6012725|gb|AW062162.1|AW062162

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAATTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|67015126|gb|CO443875.1|CO443875

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|71764263|gb|DR962200.1|DR962200

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|12967981|gb|BG264928.1|BG264928

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|67011141|gb|CO439890.1|CO439890

EST:     TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: TTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

EST: gi|18176946|gb|BM378156.1|BM378156

EST:     AAACATGAAGTGTCTAACACCACC                         ATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA
genomic: AAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAA

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), 46 (downstream exon)
Score: 115

GTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttcca ... cttgcatcagATCTGCGCTCGATGGAGAATGTGGGTTCCTTGCTGCAAATCTCTATGCCAAGAGTGTGTTTGGCGAGGACGCTCTGGTGAATATCAGTGTTGAGAAGCAG

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 63

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 105