ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacctttcccttcattagctttctgccacacaagttctagcagttcatgttgtctcagcattgatttctgatggaacttcgcag

Basic information

species	Oryza sativa
transcript	LOC_Os10g26570.1
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: LOC_Os10g26570.1 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G009591_T02 (Zea mays), 5'ss of exon 13

ACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc-tttcccttcattagctttctgccac---acaagttctagcagttcatgttgtctcagcattgatt--tctgatggaacttcgcag
 ||||||||||| ||||| |||||||| ||||||||| |||| |||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||| || | |||| | |   |   | |||||| |   ||||  ||    ||||  |  || || | | ||  ||  ||||    |||    |||
CCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCATCCTGTGCACCGTGCTTGGTCAGAATGCTgtaagacatcatttctccttgctgcatctctgcctcttgacaaaatcctttagttt-tcatgcctaaccgtttgttgttctgtgtaaaccctacag

upper sequence: LOC_Os10g26570.1 (Oryza sativa), 5'ss of exon 13
lower sequence: PP1S114_31V6.1 (Physcomitrella patens), 5'ss of exon 12

ACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacctttcccttca-----ttagctttctgccacacaagttcta-gcagttcatgttgtctc-agcattgatttctgatggaacttcgcag---
||   | ||||||||||||||||||||||| |||||| | || ||    || |||||||| || ||    ||| | ||  |||| ||||| || ||||| ||| |     ||  |          |  ||||| |      |||   ||| | | ||  | || | || || | |||||    ||      || ||    
ACCAGCGGATGTGAAGTACATTGATCCTACCTACATGATTCGAGCATGTCGAGCCAATGCTTCTGACCGAATCTTGTGTGCTGTACTTGGACAAAATGCGgtatgtttgtttgactagagcagattcggctttttttagagcaacggctaagtacttttttttctttctagaaatgattgaatattaccagtctcatcct

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|27547007|gb|CA765182.2|CA765182

EST:     GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCT                         GTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC
genomic: GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc ... aacttcgcagGTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC

EST: gi|3759637|gb|C96895.1|C96895

EST:     TGCCAATGCATCCGATGCCCATCCTATGCACTGTGCTTGGTCANAATGCT                         GTTCATGGTGCATTTGCCAGGGTTCAGTGGCATCACAACCGGCATATGCAA
genomic: TGCCAATGCATCCGATG-CCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc ... aacttcgcagGTTCATGGTGCATTTG-CAGGGTTCAGTGGCATCACAACCGGCATATGCAA

EST: gi|86851248|gb|CI312649.1|CI312649

EST:     GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCT                         GTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC
genomic: GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc ... aacttcgcagGTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC

EST: gi|58695553|gb|CK084240.1|CK084240

EST:     GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCT                         GTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC
genomic: GTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc ... aacttcgcagGTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAAC

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 1 RNA-Seqlibrary.

Block sizes: 35 (upstream exon), 47 (downstream exon)
Score: 2

ACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCATCCTATGCACTGTGCTTGGTCAGAATGCTgtaaggcacc ... aacttcgcagGTTCATGGTGCATTTGCAGGGTTCAGTGGCATCACAACCGGCATATGCAACACGCACAACGTCTACTTGCCAATCTCAGAAGTCATCAAGTCCACAAGGT