ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtctctgcctcttcacatgtgttatttccctgtattttctaaggttacaacagaactactaacaaagtccatttctcttccttgaacaag

Basic information

species	Zea mays
transcript	GRMZM2G022453_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G022453_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g49020.1 (Oryza sativa), 5'ss of exon 2

GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtctctgcctcttcacatgtgttatttccctgtattttctaaggttacaacagaactactaacaaagtccatttctcttccttgaacaag
| ||||||||| ||||||| ||||| || || |||||| | || || || |||||||| || || |||||||||  ||||||||||||  ||| |          ||||||          | || | |||| |    |||| || ||  |||  || | |  | |   ||    
GTTATGGTCCTATTGCTGAGGGAAGGCCAGTAAGAATGCGCCGCCTTCCTTGTTGTGGTCTTGGGTTAGGCTGGCTTCTgtgagtgtccatgctttc--------gttattcttgccatactactgaagtta-agtccaactccttaccgagtttatcttttgttcaaaaag---

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|5761881|gb|AI966854.1|AI966854

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211510117|gb|FL332873.1|FL332873

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCC
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCC

EST: gi|211367717|gb|FL344724.1|FL344724

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGC-ATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211106942|gb|FL338699.1|FL338699

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211361992|gb|FL325584.1|FL325584

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGC-ATTCCATGGGTTCATTGGAGCTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGG-TTCATTGGAGCTT

EST: gi|211021435|gb|FL345703.1|FL345703

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|89248089|gb|DY619875.1|DY619875

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211349709|gb|FL339346.1|FL339346

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTTATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211317797|gb|FL309524.1|FL309524

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|60397723|gb|DN230539.1|DN230539

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|89248090|gb|DY619876.1|DY619876

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211269693|gb|FL318255.1|FL318255

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|149085931|gb|EE175459.2|EE175459

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211329266|gb|FL352876.1|FL352876

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211171825|gb|FL323733.1|FL323733

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211391286|gb|FL329725.1|FL329725

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|211432570|gb|FL331491.1|FL331491

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACCGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

EST: gi|110519086|gb|EE023673.1|EE023673

EST:     GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT                         GTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT
genomic: GTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTT

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: 50

GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCTgtgagtgtct ... cttgaacaagGTTCATAACTGGGTTTTTCTTGGCTGCCATTCCATGGTTCATTGGAGCTTTCGTTCTTATATGTGTGCGGGTACATGACCAACGAGAGAAACCAGGATAC

Block sizes: 43 (upstream exon), 48 (downstream exon)
Score: 95

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 79