ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag

Basic information

species	Zea mays
transcript	GRMZM2G167872_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatag-cattcttctgagaagatgcatggttttgcag---------
 ||||||||||| ||||||||||| ||||| ||||| || ||||||||||| |||||||||||||||||||| || |||||  |||| || |||||||||||||||  ||  ||   |||         ||||| ||  |   | |   ||| |   || | | || |||| | |||||| |||        |         
TGTGAGACCTTTCAATTGGATTGGACCAAGAATGGACTTTATTCCTGGTGTTGATGGTCCTAGTGAGGGTGTTCCTCGGGTTTTGGCATGTTTCAGTAACgtatgtcaaccagtcccttt---------ctgagaataatatacctccattt-cgttatggtcgtttttctcataagatgtatgtcgccaatgaatttgcag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattct---tctgagaagatgcatggttttgcag---------
 || || || ||||| |||||||| ||  | |||||||||||||||||  | |||||||| ||||||||||| || ||||| || |||||||| || || ||  ||  ||||  ||||    ||  ||| ||  |   ||| | | |  |||   ||  ||  ||     | ||   | ||     ||||| |           
TGTAAGGCCATTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGGATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCTTGCTTTAGCAATgtcagt-tacttacttttgctattgctttttgt-tgaagtttgttgatattttagccggagttttgaaaatttgttcaaattttctgttttcctttgtctgcag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgttttttta---tttattt---tctgagtatggttggcttaattttgcaccatagc-attcttctgagaagatgcatggttttgcag---
 ||||| ||||||||||||||||| ||| | |||||||||||||| ||  | ||||| || ||||||||||| || ||||| ||||| ||||| || || ||  ||  || | ||  ||||   ||| |||     ||  |||   |  ||  || ||     |||   |||||    |     | |||   ||| | |   
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 3

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag--------------
 ||||||||||||||||||||||| ||| | |||||||||||||| ||  | |||||||| ||||||||||| || ||||| ||||| ||||| || || ||  ||  || | ||  ||||    || | | ||  ||  |   ||  | ||   | |||   ||       ||   |  ||  |||                   
TGTGAGACCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatattgttgttagtcaatatttttaaataatgattctaaatattttcttcatttcttttctgtag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgttttt-ttattt----attttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag
 ||||| |||||||| |||||||| ||  | |||||||||||||||||  | |||||||| ||||||||||| || ||||| || || ||||| || || ||  ||  ||||  ||||  ||| |     ||||  ||  ||  | | |  | ||||| |   | |        |       | | |   | |||||
TGTGAGGCCTTTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCATGCTTTAGCAATgtcagt-tacttacttttgctatgttgaagtttttagatgattttagccagagttttgaaaatttgttcaaaattttctgttttcctttgtctgcag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctga-gaagatgcatg-gttttgcag
|||  |||||||||| |||||||| || |||||||||||||| || ||  | ||||||||||| || ||||| || || || || || ||||| ||||||||| |||   |    |     | |||   |  |   | ||  |  ||  | ||||    ||| ||    | | | |  |  ||   | || |||
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgt--tcaaatccaagtatataacccaatgctagtctgtgtatatatgca----agcttttagttaatgcatctctatctatctttcag

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgttttttt-----atttattttctgagtatggttg--gcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag
 || ||||| || || |||||||| || |||||||||||||| |||||  | ||||||||||| |||||||| || ||||| || || ||||| ||||||||| ||  ||  | ||  |      |  |   ||||    |||| ||  |||||| |||      || | || |  || | |  | ||           
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag----------

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgt----gcacttgtttttttatttatt--ttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag
 ||||| || ||||| ||||||||||| || |||||||| ||||||||  | ||||||||||| ||||| || ||  |||| ||||| ||||||||||| ||  ||     ||  |||  |   ||||| |  |  |   | |  ||  |||| |  || | | |    || ||||   |  ||              
TGTGAGGCCCTTTAACTGGATTGGGCCCAGAATGGATTTTATTCCTGGCATTGATGGTCCTAGCGAGGGCGTTCCAAGGGTTCTGGCATGCTTCAGTAATgttagtttcaacatctgtcataacatttagtagtattttttttctttttcttactactg-atcttgctctttttctcccacaatag------------

upper sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgt----gcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag
 ||||| |||||||| ||||||||||| || |||||||||||||||||  | |||||||||||||| ||||| ||  |||| ||||| |||||||| || ||  ||     ||  |||  |   ||   || | || |||   ||   || |||||      |  |  |  |||       |   |      | ||
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggcttgtttg-gtagtatttttttcatttt---ttttgtctctgatcttgctctttttctcccaccgtag

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|60350531|gb|DN217504.1|DN217504

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|61118202|gb|DN559163.1|DN559163

EST:     TCGATGGTCCTAGCGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|149013843|gb|EE043323.2|EE043323

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGGGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|6095362|gb|AW120029.1|AW120029

EST:     TCGATGGTCCTAGCGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|149048836|gb|EE048336.2|EE048336

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|78088131|gb|DV516524.1|DV516524

EST:     CCCGGGTGCGGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: CCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|89755200|gb|DY685717.1|DY685717

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|61118200|gb|DN559161.1|DN559161

EST:     TCGATGGTCCTAGCGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|148943582|gb|EC888645.2|EC888645

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

EST: gi|60342920|gb|DN209893.1|DN209893

EST:     TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAAC                         AATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG
genomic: TCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAG

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: 623

CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcac ... ggttttgcagAATCTGCTCCGCCGAGAGCCTTTGAAGCTTGTCGATGGGGGCCAGTCTCAGAGAACCTTTGTATACATCAAGGATGCCATCGAAGCTGTTGTGCTGATGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 288

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 253