ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca...

Basic information

species	Zea mays
transcript	GRMZM2G132184_T02
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtca-tatttgccatgactgtgtccatcg-----aactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||||||||| ||||| || ||||||||||| |||||||| || |||||||||||||||||||| ||||| |||||||| || || ||||| ||||| |||||||   |  ||| |  |  ||| |  ||     | ||     |||   || |||  |  | | |    || || |||     |  | |    | ||  |    
TTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATGCAGCTCCGGAGTATGTTATGACAGgtaagtgcttcatcagtcatcaccagggttgacgttaccgccggtaaccgcgggggtacggtaatataaataccgc-agtaacctccttaaatt-caaataa----

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G40770.1 (Glycine max), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagca--agtctggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  ||||||||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| |||||||   | ||    | ||| |   |   ||         | || || |    |  |||   |  |       |  | |    |     | | |     |
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagt--ttagttgggtatgctaaacccaagtttgcaaggttttgctgctatttatcagtgaagtaatgcatgatcattctctggtatttccatctcccta

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G02730.1 (Glycine max), 5'ss of exon 4

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggc-cactgcca-gtgctaccagtgagcaacgaaccattca---
|||||||||||  |||| |  || || || ||||||||||||||||| |||  ||||||||||||  | || |||||||| || || ||||| ||||| ||| |||||  | ||| |  |  |||   | ||| || | || |  | |  |   || || | ||  ||   ||   |||    |  |  | | | | | | |   
TTTGGGCTTGCCCAAGATGCTCCAGTGGGAGATAAAACTCATGTTTCCACTGAAGTAATGGGAACACAAGGCTATGCAGCCCCTGAGTATGTGATGACGGgttagtatgctctcaaacatctcat---tttgttcaaccaaat--gttactattcatgtgtagcatacaatcacaagctttatgaaaatacctagctagttaggg

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA01G04930.1 (Glycine max), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgc-taccagtgagcaacgaaccattca--
||||| ||||| ||||| || || | |||||||||||| ||||| |||||||| || |||||||||||||| || ||||||||||||||||||||||| ||||||| |  | | ||||  |||| |      ||   |    | | || ||     | || |       | | ||| ||    | |         |  ||   
TTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACGCAGCACCAGAATATGTCATGACAGgtaagtttagtttgatata-gcca-gttcaaatctg-catgttttagttgttttttattcggaaagtcacaaatgcatatgctttattgttatttctatctgt

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G02570.1 (Glycine max), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaa--ccattca-
||||| ||||| ||||| || || | |||||||||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||| |  | | ||||  |||| |      ||   |    | | || || |   | |  |       |   ||||     |  |   |     | ||    
TTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagtttgatata-gcca-gttcaaatctg-catgttttagttgttatttatttggaaagtcacacatgcttatgctttgttgctgtttctatctgt

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA18G16300.1 (Glycine max), 5'ss of exon 6

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtat--cttgtcatatttgccatgactgtgtccatcgaact-ctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  ||||||||||||||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||| |   | |  ||  |       | | ||    |  | || ||  |  | ||  |       ||    || |    |  ||     |  |   |||  
TTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACTCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATGCAGCACCAGAATATGTCATGACGGgtaagtttagttggctatgctaagtccaagtttgcaggtttagctgctatttttcagtgaagtaatgcatgatcattct--ctggtatctgattacatattt-

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G01300.1 (Arabidopsis thaliana), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatc--ttgtcatatttgccatgactgtgtccatcgaactctgg-tggtgagcaagtctggccactgccagtgctaccagtgagca-acgaaccattca---------------------------------------------------------------------------------
||||||||||| ||||| |  ||||  |  |  ||||||||||| ||||||||||| ||||| || ||||| || || || || || ||||| ||||| ||||||| |   || |  | |||||  |   |     | || |  | |   |  |  | | |  ||   |  |  | |   |    |   || | |    || ||                                                                                 
TTTGGGCTTGCCAAAGATGCTCCTGATGAAGGCAAAACTCATGTGTCTACTCGAGTCATGGGCACTTATGGTTACGCTGCCCCCGAGTATGTAATGACCGgtaagttttgttttttgtctttgcatttcattcactcctctacttatatcttctctgtatggttgaatatagaaaattagaaacctacacatatggttgatgcaaagtattactatgatgaaacatacatctaatttctttggtttgagattatatataactactgtcctcttattactccttag

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 4

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatatttgccatgactgtgtccatcgaactctggtggtgagcaagtctggccactgccagtgctaccagtgagcaacgaaccattca
||||||||||| ||||| |  || |  |   | ||| | || || || || ||||| |||||||| ||||| ||||| || || |||||||| |||||||||||||     |  || ||   | ||  | ||    ||| | | | |   |||||   | | |    |   |||  ||  | ||| || |          
TTTGGGCTTGCAAAAGATGCTCCAGACGAGAAAAAATCCCACGTATCAACCCGAGTCATGGGAACTTATGGTTATGCTGCCCCTGAATATGTAATGACTGgtaagt---cagctatcttgaacttgtttttggttttcgcattatag-attgagc---ttttgaacttagaagttttaata-tgaacatcag--------

upper sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 5

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatcttgtcatat--ttgccatgactgtgtccat----cgaactctggtggtgagcaagtc-tggccactgccagtgctaccagtgagcaacgaaccattca
||||| ||||| ||||| || || |  || ||||| |||||||| ||||| || || |||||||| ||||||||||| || || |||||||| ||||| ||||||    |    ||     |  ||  | || | | |      |||||||  |  | |  || || |   | |||    |  || |  | |     |         
TTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATGCTGCCCCTGAATATGTGATGACAGgtaagagcatgcgtattcggctttcaatattgagccaaaaaaatgaactctctttttaaagaaatcatattccctgttgattttatccattaaatctggt-------

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|76282950|gb|DV022518.1|DV022518

EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG

EST: gi|148928770|gb|EC873531.2|EC873531

EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTG

EST: gi|5499049|gb|AI854916.1|AI854916

EST:     TCGAGTAATGGGAACCTATGGATATGCAGCACCAGA-TATGTCATGACTG                         GTCATCTGACATCAAAGAGTGATGTCTACAG
genomic: TCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAG

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: 91

TTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATGCAGCACCAGAATATGTCATGACTGgtaagtatct ... cacttttcagGTCATCTGACATCAAAGAGTGATGTCTACAGCTTCGGGGTGGTGCTTCTTGAGATGATGTCAGGGCGCAGGTCGATGGACAAGAACCGCCCGAACGGGGA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 73

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 93