ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgatcttccattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatgtaccag

Basic information

species	Zea mays
transcript	GRMZM2G012284_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os06g03760.3 (Oryza sativa), 5'ss of exon 7

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtat-cttctgatc-ttccattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatgtaccag
|| || ||||||||||||||||| |||||||||||||||||||| |||||| | || || |||||||||||| ||||| |||| ||||||||||||||||||||  ||||| || || |||| || | ||||  | ||  |||    |  |  ||  |  ||| ||||| ||| ||||  ||
TCGATTGCTTGGGTTGCACATATCGTCATATACTTGTTGATTGACCCTCCTTTGTCCTCCTTCCTGAATGAAATCTTCGTAAAATTGGATGGTGTTTGGGgtatatttctgttcattacattgttctgaactcgtcctattgatgacagtagctt-gaccaatattctgttttctgtattag

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA16G19230.1 (Glycine max), 5'ss of exon 8

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgatcttc----cattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatgtaccag-----------------------------------
||| | || |||||  | |||||  | || ||| | || ||||||||||| || ||| ||||| |||||||||| ||||| ||| | |||| ||| |||||||| ||   |   ||     ||| || |   |||  | |    |    ||   || || |  || |  | ||| ||  |                                       
TCAGTGGCGTGGGTCACTCATATAATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATCAAGCTAGATGATGTCTGGGgtatgttggaaagctcaggctatttttctttccttcagttatgtataataattgatacattatatgtaat-attcattcagttaatctagatgatatatgtaatttgttctttcatcag

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 9

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgat-cttccattcttgtcaact--tatgctgc--tgagccgaacaaattcaattaatcttctgatttatgtac---cag------------------------------------
||  | || |||||||| |||||  | || ||  | || |||||||||||||| ||| ||||| |||||||||| ||||| ||| |||||| | | |||||||| ||   || ||   |   ||    | |  |    | |  | |||   | |   |  |   ||  | |  ||||| | |   |||                                    
TCTGTGGCATGGGTTGCTCATATCATTATCTATCTATTAATTGATCCTCCTCTTTCTCCTTTCTTGAATGAAGTTTTCATCAAGCTGGATGATATCTGGGgtatgttggaatactcttacctttagtgattattccattaccataagctatagagtatagagacattatatattttattttcattcagtaattcttcatgatgtatgcattcttctttcatcag

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 9

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgatcttc----cattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatg-taccag--------------------------------------
||| | || ||||| || |||||| | || ||| | || ||||||||||| || ||| ||||| |||||||||| ||||| ||| | |||| ||| |||||||| ||   |   ||     ||| || |   |||  | |    |    ||   || || |  ||  | ||   |||  |  ||                                       
TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctagatgatatatgtaatttgttctttcatcag

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 9

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgatcttc----cattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatgtaccag-----------------------------------
||| | || |||||  | |||||  | || ||| | || ||||||||||| || ||| ||||| |||||||||| ||||| ||| | |||| ||| |||||||| ||   |   ||     ||| || |   |||  | |    |    ||   || || |  || |  | ||| ||  |                                       
TCAGTGGCGTGGGTCACTCATATAATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaggctcaggctatttttctttccttcagttatgtataataattgatacattatatgtaat-attcattcagttaatctagatgatatatgcaatttgttctttcatcag

upper sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 9

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtat--cttctgatctt--ccattcttgtcaacttatgctgctgagccgaacaaattca-------attaatcttctgatttatgtaccag
||| | |||||| |||| ||||| |||||||| ||| |||||||||||||||| ||| ||||| | ||||| || ||||| ||| | |||| ||| |||||||   ||   ||| ||  |  |   ||| |  ||||     |   |   |  |  | |       ||  ||||| | | || |    |||
TCAGTGGCTTGGATTGCTCATATCGTCATATATTTGCTGATTGATCCTCCTCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctatagatttttgctgtctctgttattttatttcctttcactagatgatcttattctgagatgtatcttgt-acttcttcgtcag

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|67039856|gb|CO466111.1|CO466111

EST:     TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGG                         GTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG
genomic: TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG

EST: gi|76288406|gb|DV027974.1|DV027974

EST:     TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGG                         GTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG
genomic: TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG

EST: gi|38568991|gb|CF974876.1|CF974876

EST:     TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGG                         GTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG
genomic: TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG

EST: gi|67024981|gb|CO453730.1|CO453730

EST:     TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGG                         GTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG
genomic: TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG

EST: gi|33942467|gb|CF349067.1|CF349067

EST:     TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGG                         GTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG
genomic: TCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTG

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: 231

TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctg ... tatgtaccagGTCTGCTTGGGACTGCTGCTTTCGCATTCTTCTGCTTCTATCTTCTTATTGCAGTGATTGCTGGGGAGATGATGCTTGGATTGAAGCTAGTTTTTATCAC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 251

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 266