ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtgcgtgtaggattcattagaaattctttattgattctgcaatggtgttttaagagaagttaggaaacgttgggtgtctcaaatagaagaaccaaatatatagttgttttagatagttttgaccatatgtattcacctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTTGTTGATGACCGTTACACTGGTGAGATACATGTGACAATCATTGCGACAG

Basic information

species	Zea mays
transcript	GRMZM2G119773_T01
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G119773_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g56970.1 (Oryza sativa), 3'ss of exon 5

gtgcgtgtaggattcattagaaattcttt--attgattctgca----------atggtgttttaagag---aagttaggaaacgttgggtgtc----------tcaaa----------tagaagaaccaaatatat-------agttgttttagata----gttttgacca-tatgtattcacctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTTGTTGATGACCGTTACACTGGTGAGATACATGTGACAATCATTGCGACAG
|||||||||  |||  ||   | |   ||  | ||  | || |          || |   | ||| |    ||||    |||| |  | ||            ||| |          |||    ||   |  |||       || || || |  |     |||||||||| |   ||| ||| | |||||||||||||||||| | || || || ||||| || ||||||||||| || |||||||||||||| |||||||||||||| |||||||| |||||||| ||||
gtgcgtgtaatatttcttgccattgtcttgaactgtctttgaagaagtatgatatagcactgtaatatgttaagtcgaaaaacttaagatgctattatcacgatcatactccacaatttagggctactggaattatgtggcctaggtgattgaagtgctttgttttgaccaatgcttatgcacgttttgcagATTGTGACAAGCTTGGCCGATCCTTCTGCAAATATAATTTTCGGGGCTGTTGTTGATGACCGGTACACTGGTGAGATTCATGTGACGATCATTGCCACAG

upper sequence: GRMZM2G119773_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G10030.1 (Glycine max), 3'ss of exon 6

gtgcgtgtaggattcattagaaattctttattgattctgcaatggtgttttaagagaagttaggaaacgttggg--tgtctcaaatagaagaaccaaatatatagttgttttagatagttttgaccatatgtattcacctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTTGTTGATGACCGTTACACTGGTGAGATACATGTGACAATCATTGCGACAG-
                                     | |    |  |||||     ||   | | |  |  |   | | |  |    | |||     | |  |  | || ||    |||||   || |  |    | ||  || || | ||||||||  |||| ||||| ||||| || || || || ||||||||||||||||| || |||| ||| ||||| |||||||| |||||||| || | 
-------------------------------------tacttaagaattttattgtcagaaggaacatttcagcattcttttgatcttatgaatttgttgtgaacat-ttgtatcctgtttt---caaaacttcataactgctgtaggTGGTGACAAGTTTAGCCGACCCTTCTGCCAATATTATATTTGGTGCCGTTGTTGATGATCGCTACAATGGGGAGATTCATGTGACTATCATTGCAACTGG

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|110963288|gb|EE183188.1|EE183188

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|148971011|gb|EE021840.2|EE021840

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|31910942|gb|CD651676.1|CD651676

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|88755310|gb|DY539451.1|DY539451

EST:     TTATTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|211392485|gb|FL384044.1|FL384044

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCTGTC
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|76923025|gb|DV169297.1|DV169297

EST:     TTACT-GTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|60394779|gb|DN227649.1|DN227649

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCTCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCTGTC
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|78078488|gb|DV506901.1|DV506901

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|74235119|gb|DT643033.1|DT643033

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAACCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|148970649|gb|EE021356.2|EE021356

EST:     TTATTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|60336806|gb|DN203779.1|DN203779

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|60400537|gb|DN233344.1|DN233344

EST:     TCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|88749411|gb|DY533552.1|DY533552

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|8665377|gb|BE186193.1|BE186193

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCTGTC
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|211367756|gb|FL457532.1|FL457532

EST:     TGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|16379585|gb|BI993029.1|BI993029

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|149097958|gb|EE183901.2|EE183901

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|71450105|gb|DR831155.1|DR831155

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|71305506|gb|DR788896.1|DR788896

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|211478791|gb|FL377823.1|FL377823

EST:     TTACTGGCGGGAAGGACATCACTTTGCAAGAAGTGGACAAGGTGTCCCCG                         ATTGTGACAAGCCTAGCTGA
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGA

EST: gi|5124177|gb|AI745801.1|AI745801

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCTGTC
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|20513071|gb|BQ280257.1|BQ280257

EST:     AAGGTGTCCCAG                         ATTGTGACAAGCCTAGCTGACCCATCTGCGAGCATAATTTTCGGTGCTGTC
genomic: AAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

EST: gi|86469527|gb|DY235897.1|DY235897

EST:     TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAG                         ATTGCGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT
genomic: TTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTT

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: 442

TCCTTTGATTGGATCATCCATCGAGGCAGCTACTGGCGTTGTGTATAATATTACTGGTGGGAAGGACATCACTTTGCAAGAAGTGAACAAGGTGTCCCAGgtgcgtgtag ... cctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTTGTTGATGACCGTTACACTGGTGAGATACATGTGACAATCATTGCGACAG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 241

Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 131

Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 190

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

accaaatatatagttgttttagatagttttgaccatatgtattcacctcttgcagATTGTGACAAGCCTAGCTGACCCATCTGCGAACATAATTTTCGGTGCCGTTGTTGATGACCGTTACACTGGTGAGATACATGTGACAATCATTGCGACAG