ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATTAATGAGTGGCACTGTGGCTTTTGCAAGAAAGCTTTCCGAGCAGAGAAGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttacataacagtgattatatttctttagtatatgcttacttatcatgaatttgatattatttgtattgtaatcacaagctataccttctttcat...

Basic information

species	Zea mays
transcript	GRMZM2G095323_T02
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G095323_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os12g13130.4 (Oryza sativa), 5'ss of exon 5

TATTAATGAGTGGCACTGTGGCTTTTGCAAGAAAGCTTTCCGAGCAGAGAAGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttacataacagtgattatatttctttagtatatgcttacttatcatgaatttgatattatttgtat-tgtaatcacaagctataccttctttcat--
||| ||||| |||| |||||| || ||||||||||| |||||||||||||||||| |||||||||||||| | ||||| ||||| |||||||||||||||||||| || | || |  |    ||    ||||     || | | |  || |   | ||| || || ||  || | |  |  |   || |       ||  |  
TATAAATGAATGGCGCTGTGGTTTCTGCAAGAAAGCCTTCCGAGCAGAGAAGTTCCTTGATCAGCATTTTCACAATCGGCACAATAATCTTGTGGATAATgtatgatt-cttaccgatttgcatgagactttcaatcatccgttcc-ataaatcacttg-tactagtttcatatctgctttctttctttgatagtattggtgt

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|91878948|gb|EB408905.1|EB408905

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCCCAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATG

EST: gi|71428073|gb|DR809123.1|DR809123

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|78125182|gb|DV543566.1|DV543566

EST:     AGTTCATTGATCAGCATTTTGAATATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCGTGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71330742|gb|DR802158.1|DR802158

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|148956175|gb|EC901959.2|EC901959

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|76293362|gb|DV032930.1|DV032930

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|78116974|gb|DV535361.1|DV535361

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71770155|gb|DR968092.1|DR968092

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71428072|gb|DR809122.1|DR809122

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71439253|gb|DR820303.1|DR820303

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71310796|gb|DR791700.1|DR791700

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|88755486|gb|DY539627.1|DY539627

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|71773093|gb|DR971011.1|DR971011

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

EST: gi|78115630|gb|DV534018.1|DV534018

EST:     AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAAT                         AGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG
genomic: AGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTG

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), 48 (downstream exon)
Score: 59

TATTAATGAGTGGCACTGTGGCTTTTGCAAGAAAGCTTTCCGAGCAGAGAAGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATgtatgcttac ... attttcttagAGTGAAGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTGATGATGCAGTTCAAAAAACCAAAAAGTAAATGCAATGCAGCTGCAGCTA

Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 55

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 60