ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAAGTTCATCGCAAGTCAAATCAAGAACGATGAACCTAAAGGGCTCCAGAGGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgttattcttttcatgtttgaactaatccactagtgggttttatatcgtgttttcgtgtatgggtgatgtagaatactttgtgatgctcagatct...

Basic information

species	Zea mays
transcript	GRMZM2G003734_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G003734_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g14654.3 (Oryza sativa), 5'ss of exon 5

GAAGTTCATCGCAAGTCAAATCAAGAACGATGAACCTAAAGGGCTCCAGAGGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgttattcttttcatgtttgaactaatccactagtgggttttatatcgtgttttcgtgtatgggtgatgtagaatactttgtgatgctcagatct---------
||| || || ||||| || || ||||||||||| ||||||||||| |||||||||| ||| ||||||||||| || || ||||| ||||| || || |||||  || || ||   ||| |  ||       || | |     ||| ||| | |||  || |  |     |    ||||||| ||||  |  ||||||            
GAAATTAATTGCAAGCCAGATTAAGAACGATGAGCCTAAAGGGCTTCAGAGGGAATTCTTTCTTTACTTTGTGCCACGGCGCACAGTTGCCTGCGAAAAGgtgactattgtt---ttcgtactttgctggttctatt-----gttctatct-gtggcttaggattcaattatattagaataatttgctagcctcagacacaattcaatt

upper sequence: GRMZM2G003734_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA10G35210.1 (Glycine max), 5'ss of exon 4

GAAGTTCATCGCAAGTCAAATCAAGAACGATGAACCTAAAGGGCTCCAGAGGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgttattcttttcatgtttgaactaatccactagtgggttttatatcgtgtt--ttcgtgtatgggtgatg-tagaatacttt-gtgatgctcagatct--
||  |||||      | | ||  | || |||| | | ||||| || || || |||||     |||| ||||| |||||||||||||||| ||||||||| |||       ||   ||    ||  | ||| ||      ||||  | || |  |  |  ||  | | |   ||     || |||  |  ||  |  ||   | |  
GAGATTCATATGTTCTAATATTCATAATGATGTATCGAAAGGACTGCAAAGAGAATATCATGTTTATTTTGTCCCTCGCCGCACTGTTGTTTGTGAGAAAgtaagc----tttccttggaattgaatctattctggacttgggcatgatgtttttctgttttatatctctatgccaacagcataaatcagtatttttcttgtgtag

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|76292771|gb|DV032339.1|DV032339

EST:     GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCCGAAACTGACATTCGG
genomic: GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGG

EST: gi|148972311|gb|EE023217.2|EE023217

EST:     GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC
genomic: GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC

EST: gi|91049806|gb|EB160224.1|EB160224

EST:     GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC
genomic: GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC

EST: gi|148963504|gb|EE014525.2|EE014525

EST:     GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC
genomic: GGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC

EST: gi|32932185|gb|CF036997.1|CF036997

EST:     TACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC
genomic: TACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC

EST: gi|33091408|gb|CF051402.1|CF051402

EST:     ACCTCGCCGCACTGTTGCTTGTGAGAAG                         ATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC
genomic: ACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCC

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), 49 (downstream exon)
Score: 123

GAAGTTCATCGCAAGTCAAATCAAGAACGATGAACCTAAAGGGCTCCAGAGGGAATACTTCCTTTACTTTGTACCTCGCCGCACTGTTGCTTGTGAGAAGgtatctgtta ... gcatctgcagATCCTGGAGGAAGAGAAAGTTCATCAGAAACTGACATTCGGAGAATATCCCTTATATCTAGTTCCATTGGATGATGATGTCTTGTCTCTTGAACTTGACC

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 110

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 124