ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag

Basic information

species	Zea mays
transcript	GRMZM2G142030_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatag---agtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaat--agcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
|||||||||||| || |||||||| ||||| |||||||| |||||||| |||||||| || || || || || || || ||||||||||||||||||||||| ||| || |   ||  ||  |   |||  | |  |     | || |  ||| |||| |  ||||||| | |       |  |    |  |   ||   || ||   ||| | |||| |                                                                                 
TTTTGAGGTTCTCGGAGACAATGACTCTCCAGTTATGCCAATAATGCTCTACAATCCAGCCAAAATTCCAGCTTTTTCCAGGGAGTGCCTTAGACAAAAGgttagtaatggtatagaatgctat-ttatcttcagaaatggtacagaataatggtttttgc-cagttttttgtcgttccctagcccctattaccgtgcgactgatgtggcactggcatttcag------------------------------------------------------------------------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA02G07250.1 (Glycine max), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
 |||||||||||||| || ||||||||||| || ||||| || ||||||||||| ||||| || |||||||| || || || |||||||| |  || || || ||  | |     | ||  ||||| ||      |  | |   ||  | | |    ||    |   |||   |||     |||   |  | |  |   |                                                                                                
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCGGCCAAAATCCCTGCCTTTTCAAGAGAGTGCCTCAAGCAGAATgtgaga-acatcaaatatccaactat-ctatgctccttgttgataccctacatcatataagaatgaatttgttaattaatgtttacaattttttatttcag-----------------------------------------------------------------------------------------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttgg-tacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
 |||||||||||||| || ||||||||||| || ||||| || ||||||||||| || || || |||||||| ||||| || |||||||| |  || || || ||    |   |    |    |  ||         |     ||  |||  |  |  |  | || |   | ||  | |  | ||    | |   |                                                                                                     
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCCGCCAAAATCCCTGCCTTCTCAAGAGAGTGCCTCAAGCAGAATgtaagatcaaacatccaactttatgctccttgtcgataccctacatcatgtataagaatgaaattgttaatcaatgtttaccatttttgaattcag-----------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttg--tcagactat--tctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
 |||||||| ||||| ||||||||||| || || ||||| |||||||||||||| || || || ||||| || ||||| || || || ||  ||||||| || |||  ||   ||    ||  | |||  | |||  |  |   || ||| | |    |   |   |       ||||  ||||  ||| |      ||||| ||| | |  |   || |   || | |                                                                       
ATTTGAGGTACTTGGAGACAATGATTCCCCAGTCATGCCTATAATGCTTTACAACCCAGCAAAAATCCCAGCTTTCTCAAGAGAATGTCTGCGACAAAAAgtaagttctattattcaaatccaaatatcatatgagaactcgattaacacaagg----taacaagatcaaaaagtaaatgattaacttgtg------ggtgc-aatggaacct---tgaaactctgaacag---------------------------------------------------------------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT3G48780.1 (Arabidopsis thaliana), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgc-taatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
 ||||| |||||||| ||||||||||| || || ||||| ||||||||||||||||| || || || || |||||||| ||||| ||  |  || |||| ||         ||||| ||   || |||| || |          | |||  ||||      | || |    || | | |    |   | ||     |  ||||   | |||     ||                                                                               
GTTTGAAGTTCTTGGAGACAATGATTCACCAGTCATGCCAATAATGCTTTACAATCCAGCAAAAATTCCAGCATTCTCAAGGGAATGTTTGCGAGAAAACgtt--------agtttctcttgcttttcttaaaa----------aatattttttt----ttgcttccacacaagagactcacctcctatgttcaacggataatgaaatttgtgaacag-------------------------------------------------------------------------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 5'ss of exon 11

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaata-ttactttg-agaagtctggtgctaatagcagttgcat-gtagtccttatccatcacta-tttgcacccatcggttttgttcttcctcttt-gtcatgcggctaataagacacttatatttcag
 |||||||||||||| || |||||||||||||| ||||| ||||||||||||||||| || || || ||||| || ||  ||||||| || | ||| || || ||   ||   ||  |       ||||  | || ||       | || | | |  |    || |   ||||| ||  | |  |  |||  |     |  | |  || ||| || | | | || ||  ||| | | ||      ||   || | | |  |  |     || |||| | |                     
CTTTGAGGTTCTTGGAGATAATGATTCTCCTGTAATGCCAATAATGCTTTACAATCCAGCCAAAATTCCTGCCTTTTCGCGGGAGTGTCTCAAACAGAATgtaagctttatctttaat-------ttctatacattca-------ccattcatgtcttttcattcttgattaaagtagctgcaatacagagattccaagtcatt--catttgtatagcactgctcattaatctccagttcaagttcacttgtgtggctagtattgacaagttatgctgttccag-----------------

upper sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag
||||||||||||||| || ||||| ||||| || ||||| ||||||||||| ||||| |  || || ||||| |||||  | |||||||| |  ||||| ||        ||||   |||    || |    |  | | |    |||||| || |   |   |   ||||||    ||  || |  ||  | |  | | ||| |||      | || ||    | |||  || |||       ||  |  || | || |                                     
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgt--------gagtccatcaagacatgcacgtgtcctata----actatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcaca---gtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag-----------------------------------

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|71315833|gb|DR794581.1|DR794581

EST:     ACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAG                         GTCGCCGTTGTTACCGTGGCGTTTCCAGCAACACCTCTTCTTCTTGTTAGG
genomic: ACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcata ... tatatttcagGTCGCCGTTGTTACCGTGGCGTTTCCAGCAACACCTCTTCTTCTTGCTAGG

EST: gi|76016898|gb|DT944068.1|DT944068

EST:     ACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAG                         GTCGCCGTTGTTACCGTGGCGTTTCCAGCAACACCTCTTCTTCTTGTTAGG
genomic: ACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcata ... tatatttcagGTCGCCGTTGTTACCGTGGCGTTTCCAGCAACACCTCTTCTTCTTGCTAGG

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: 44 (upstream exon), 49 (downstream exon)
Score: 139

TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcata ... tatatttcagGTCGCCGTTGTTACCGTGGCGTTTCCAGCAACACCTCTTCTTCTTGCTAGGGCACGCATCTGCATTTCGGCTTCACACACTAGGGAGGATTTGATGAAAG

Block sizes: 42 (upstream exon), 48 (downstream exon)
Score: 189

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 127