ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTTTCAATCTACACAGGATTAATATACAATGAATTTTTCTCTGTTCCATTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaatgagataaagaagcctaatgtttatatatttataaatttgcacacttatctggctcattaatttccacactttggtcatag

Basic information

species	Zea mays
transcript	GRMZM2G058910_T01
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os03g14690.1 (Oryza sativa), 5'ss of exon 12

TTTTTTCAATCTACACAGGATTAATATACAATGAATTTTTCTCTGTTCCATTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaatgagataaagaagcctaatgtttatatatttataaatttgcacacttatctggctcattaatttccacactttggtcatag
| ||||||||||| |||||||||||||||||||||||||||||||||||||||| |||||| ||||||||||| ||||||||||||||| |||||||  |||||| ||||      ||  || ||  | |||| |||   | ||||   | | | ||||  | ||  ||| | |      | |||   |||
TCTTTTCAATCTATACAGGATTAATATACAATGAATTTTTCTCTGTTCCATTTGAGCTTTTTGGTAAATCTGCTTATGCATGCCGTGATCCTTCTTGTGGgtaagaaaaagtttcaaacaaaacc--acgtttttatccctttaaaaaagaatatttat--gcctacttattgtttgtcttgtggatttag

upper sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA06G03040.1 (Glycine max), 5'ss of exon 12

TTTTTTCAATCTACACAGGATTAATATACAATGAATTTTTCTCTGTTCCATTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaatgagataaagaagcctaatgtttatatatttataaatttgcacacttatctggctcat-taatttccacactttggtcatag------
| || |||||||| || || || ||||| || || |||||||||||||||||||  || || ||   |||||| |||| ||| ||||||||||| |||||||  ||  | |   | ||   |  | |  | |||  | | | |   | |    | | |  || || |  |  | |        |  ||||        
TCTTCTCAATCTATACCGGGTTGATATATAACGAGTTTTTCTCTGTTCCATTTGAACTATTTGGACCATCTGCTTATGGATGTCGTGATTCTTCATGCAGgt--ggttattagtacaatttattcaacagattacttttctct---tctattaattgaattgacttaaattgtgtgtgtgtaatattcattattacag

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|71768892|gb|DR966829.1|DR966829

EST:     TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAG                         TGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG
genomic: TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG

EST: gi|71441347|gb|DR822397.1|DR822397

EST:     TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAG                         TGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG
genomic: TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG

EST: gi|67016167|gb|CO444916.1|CO444916

EST:     TCTTCTTGCAG                         TGATGCTACTACCGAA-GACTTCTTAAAGTAAGAGATGCATACCCTTTTGG
genomic: TCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG

EST: gi|67013974|gb|CO442723.1|CO442723

EST:     TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAG                         TGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG
genomic: TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG

EST: gi|30031855|gb|CB833706.1|CB833706

EST:     TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAG                         TGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG
genomic: TTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGG

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: 237

TTTTTTCAATCTACACAGGATTAATATACAATGAATTTTTCTCTGTTCCATTTGGGCTTTTCGGTAAATCTGCCTATGCATGCCGTGATTCTTCTTGCAGgtaaggaaaa ... ttggtcatagTGATGCTACTACCGAAGGACTTCTTAAAGTAAGAGATGCATACCCTTTTGGTGTGGACCCTGTCTGGCATGGTAGCCGCAGTGAGCTACCGTTTCTCAAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 464

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 323