ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAAGCTTATTTTCGTCTCTAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctatacattcacttatctaattgctggactgatacctggcgaatgatctgacacataaagtacctttgtcag

Basic information

species	Zea mays
transcript	GRMZM5G890843_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G890843_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 5'ss of exon 5

GTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAAGCTTATTTTCGTCTCTAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctatacattcacttatctaattgctggactgatacctggcgaatgatctgacacataaagtacctttgtcag
 |||||||| ||||||||||||||||||||||||||| |||||||||||||||||||||| || || || |||||||||||||||||||| ||||||||||| || ||  ||| ||||| || || |   |  ||||| | | |  |  |   || |     ||  | |||||||
ATGGTACCGATTTTTCCTGAACAAGGAGTATGGAAGCCTATTTTCGTCTCTAACCACTGGATTATACCTTACTTTCAAGTTGACATCAGTTGTGGAAAAGgtactgtaacttcccttatttagtttcgtaagggatacttagtgcctcctaaaactccagctgtttccttgtcag

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|32851182|gb|CD990863.1|CD990863

EST:     TAACCACTGGATTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAG                         GTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT
genomic: TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT

EST: gi|211069208|gb|FL305338.1|FL305338

EST:     TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTAGAAAAG                         GTTCAATCATTTTTGACGGCACTGAGAGCGTTATCTCATAAAGACTTCCAT
genomic: TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT

EST: gi|166529385|gb|EG045172.1|EG045172

EST:     CTTTCAAGTTGACATCAGTCGTGGAAAAG                         GTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT
genomic: CTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT

EST: gi|211069207|gb|FL305337.1|FL305337

EST:     CAAGTTGACATCAGTCGTAGAAAAG                         GTTCAATCATTTTTGACGGCACTGAGAGCGTTATCTCATAAAGACTTCCAT
genomic: CAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT

EST: gi|211188890|gb|FL010921.1|FL010921

EST:     TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTAGAAAAG                         GTTCAATCATTTTTGACG
genomic: TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACG

EST: gi|211188888|gb|FL010919.1|FL010919

EST:     TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTAGAAAAG                         GTTCAATCATTTTTGACGGCACTGAGAGCGTTATCTCATAAAGACTTCCAT
genomic: TAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCAT

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: 47 (upstream exon), 47 (downstream exon)
Score: 48

GTGGTACCGTTTTTTCCTGAACAAGGAGTATGGAAGCTTATTTTCGTCTCTAACCACTGGCTTGTATCTCACTTTCAAGTTGACATCAGTCGTGGAAAAGgtgctataca ... cctttgtcagGTTCAATCATTTTTGACGGCATTGAGAGCGTTATCTCATAAAGACTTCCATTGTGGCTCATATGCAACAAGCGAGCAG

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 38

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 63