ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcatttgccttggcctccttataaccttcatgctatatgctgaaatatgacaataggtt...

Basic information

species	Zea mays
transcript	GRMZM2G146697_T02
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 5'ss of exon 8

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcatttgccttggcctccttataaccttcatgctatatgctgaaatatgacaata--ggtt------
||| |||||||||||||||||||| |||||||||||||| ||||||||||||||| ||| ||||||||||||||||||||  |||||||||||||||| |||||||         ||||||| |||||  |||| || || | |||     |||||   |  ||   | |||||| | || |||||||| | ||||  | |       
GGGAGAATATGGAACAGCAGATGGGAAATATTCAGCTTCATATATTATTGGGAAGCTGTATGATGTGGCAGAGGCCCACCCAACTGATGACACTGTCAGGgtatgc-------tcttgtagtttagcttttgttccactg-ttattacatgtggcccattgctactgtgcatgctctgtgttgaaatattataatatagatccaagtt

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA01G35650.1 (Glycine max), 5'ss of exon 7

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcatttgccttggcctccttataaccttcatgctatatgctga-aatatgacaataggtt
||||||||| ||||||||||||||||| ||||| ||||||||||| | ||||||||| |||||  | ||||||||  |   || |||||| | ||| |||||||  |||   |      | | |  || ||     |  ||  |   |      |       | |     |   |   ||||   |||||    | ||   
GGGGGAATACGGAACAGCAGATGGAAAGTATTCTGCTTCTTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCAATGATGAAAATGTTAAGgtatttattagaagccaacact-tccctaataaggaaaggggaaaaggttaaaacacataatttagggagactttggttgcttttaatattgacacagtaa

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA16G08320.1 (Glycine max), 5'ss of exon 7

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcatttgccttggcctccttataaccttcatgctatatgctgaaatatgacaataggtt-
 ||||||||||| || || |||||||||||||| ||||| ||||| | ||||||| | |||||||| ||||||||  |    | |||||| ||||| |||||||  || |        |  | | | |  ||| | | ||        | ||   ||  | |  |       |  |  |  ||| |       |||     
TGGGGAATATGGCACTGCTGATGGAAAATATTCTGCTTCGTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAAATGATGAAACTGTTAAGgtatttatctaattccaattattttgttt-tgtattagtgaaatccaactttttactgataaggagagaggggaaaagtaatgataccctttgatattgac

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA16G20260.1 (Glycine max), 5'ss of exon 7

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcatttgccttggcctccttataaccttcatgctata--tgctgaaata--tgacaataggtt
|||||||||||| ||||| |||||||| ||||| ||||| ||||| | ||||||| | |||||||| ||||||||  |    | |||||| ||||| |||||||  || |     ||  | | ||  |  | ||  ||| || |  | |       | || ||||       |  | |  |    || ||  |  | |    ||
GGGGGAATATGGCACAGCTGATGGAAAGTATTCTGCTTCCTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAAATGATGAAACTGTTAAGgtatttatctaa---ttccaat-tattttgttttgtattagtgaaatccaacattttactgataagaagaggggaaaagttatcaaattaacttgctaccaatt

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA09G35240.1 (Glycine max), 5'ss of exon 7

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgtttcattggtcat---ttgccttggcctccttataaccttcatgctatatgctgaaatatgacaataggtt
||||||||||||||||| ||||||||| ||||| ||||| ||||| | ||||||||| |||||  | ||||||||  |   || |||||| | ||| |||||||  |||   |      | | |  || ||     |  ||  |    ||    ||      |||  |      || |   |  | | || |||||  ||   
GGGGGAATATGGAACAGTAGATGGAAAGTATTCTGCTTCCTATATCAGTGGGAAGTTATGTGACATTGCAGAGGCATATTCCAATGATGAAAATGTTAAGgtatttattggaagccaacact-tcccttataaggaaagggggaaaagttaaaatgcataatttaggaatactttgattgcttttaatat-tgacatcagta-

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 5'ss of exon 7

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcat-gtttcattggtcatttgccttggcctccttataaccttcatgc-tatatgctgaaatatgacaataggtt
||| |||||||| ||||| ||||| |||||||| || || ||||||| ||| ||| |||| ||||||||||| ||  ||   | |||||| ||||| ||||||| |  ||   ||||  | | |   |||  ||   |    | |  ||| | |   | ||  |    |   |   | ||||||| | | |      |    
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtat-ctcttcagcttttaaatattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac-

upper sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 5'ss of exon 8

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcatgttt-cattggtcatttgccttggcctcctta--taacct--tcatgctatatgctgaaatatgacaataggtt-
||| || |||||||| || | |||||| ||||| ||||| ||||| | ||| ||||| ||||||||||||||||||||    |   |||||||||| ||||||| |  |  | |||| |        |  ||||| |||||||  |||| |  |   |  ||    ||||   |   | |||||| |    | |  | |     | 
GGGTGAGTATGGAACTGCGGGTGGAAAGTATTCTGCTTCCTATATCACTGGAAAGTTATGTGATGTGGCAGAGGCCCATTCAAGCAATGACACTGTTAAGgtattc-ctcagcctttatga---gttttgtgtttgcattggt--tttgtcaggtttttattggtcaaccaagtttagttatatggtttggtttttctagttactg

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|9952284|gb|BE638867.1|BE638867

EST:     GGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAG                         GCATATGCGATCTCAGCAATTCTGAAGACATTTGCGTTTGAAATCACTCTT
genomic: GGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattt ... cttatttaagGCATATGCGATCTCAGCAATTCTGAAGACATTTGCGTTTGAAATCACTCTT

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), 47 (downstream exon)
Score: 98

GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattt ... cttatttaagGCATATGCGATCTCAGCAATTCTGAAGACATTTGCGTTTGAAATCACTCTTGGAAGAAAGATCGATTTGCTGCCTGAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 76

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 89