ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGAGCTCGACCATATCAAGGAGCTGATCAAGTGGGGAACAGACTACATCCTCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagccatagatcatcttgcttgatggctgatttgctctgtcccaagaaattggtcatcagatccaccaaaccactgactacaacatgaacttctcgttattgcag

Basic information

species	Zea mays
transcript	GRMZM2G110735_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G110735_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g52630.2 (Oryza sativa), 5'ss of exon 1

TGAGCTCGACCATATCAAGGAGCTGATCAAGTGGGGAACAGACTACATCCTCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagccatagatcatcttg----cttgatggctgatttgctctgtcccaagaaattggtcatcagatccaccaaaccactgactacaacatgaacttctcgttattgcag-------------------------------
||||||||||||| |||||||||||||||||||||| ||||| ||| ||||||| |||||||||||||| || || || || ||  |||| ||||| |||||||||||     || |||||      | |||    | | || | ||||||||||||||  | | ||||||||||  ||  |   |    ||  |  ||  |   || |   |                                
TGAGCTCGACCATGTCAAGGAGCTGATCAAGTGGGGCACAGATTACCTCCTCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaagccgaccatctgttaatcctgagttttcactttc-ctgtcccaagaaataaggcgtcagatccactcaaatatgtagagtaaacttcacagcagattttctaaatcattggtatcatatgaacttcttattgcag

upper sequence: GRMZM2G110735_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 5'ss of exon 2

TGAGCTCGACCATATCAAGGAGCTGATCAAGTGGGGAACAGACTACATCCTCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagccatagatcatcttgcttgatggctgatttgctctgtcccaagaaattggtcatcagatccaccaaaccactgactacaacatgaacttctcgttattgcag
 |||||| ||||| |||| ||| | |||||||||||||| || ||| | |||||||| |||||||| |||||||| || ||||||||||| || || |||||   |    |||      | ||     | ||  ||||  |  |   || |||  | |      | |        ||  | | |    || ||  |   | || || || 
GGAGCTCAACCATGTCAAAGAGATAATCAAGTGGGGAACTGATTACTTTCTCAAAACTTTCAATTCTTCTGCTGATACCATAGACAGGATGGTTGCACAGgtaaat--ttata------cctgtggtttagccaatttagttagctacatgaagatagcttgttgttttttgtttccttttagtcttccaggatatatccattttt-ca-

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|32837040|gb|CD976718.1|CD976718

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGGAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32838042|gb|CD977720.1|CD977720

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32849699|gb|CD989380.1|CD989380

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|31358572|gb|CD442929.1|CD442929

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATCGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32838343|gb|CD978021.1|CD978021

EST:     CAAAACCTTCAATTCATCTGCTGACACTGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: CAAAACCTTCAATTCATCTGCTGACAC-GATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|40336598|gb|CK370668.1|CK370668

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|31358262|gb|CD442619.1|CD442619

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATCGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32838193|gb|CD977871.1|CD977871

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|211452172|gb|FL052890.1|FL052890

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATCGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAN
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTA-

EST: gi|8367350|gb|BE050295.1|BE050295

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATCGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32844858|gb|CD984539.1|CD984539

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32837806|gb|CD977484.1|CD977484

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

EST: gi|32836897|gb|CD976575.1|CD976575

EST:     TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAG                         GTGGGTGTAGGTGACACCTCTAAAGGCAGCAGACAGCCTAATGACCATTAC
genomic: TCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTAC

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: 39 (upstream exon), 49 (downstream exon)
Score: 190

TGAGCTCGACCATATCAAGGAGCTGATCAAGTGGGGAACAGACTACATCCTCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagcc ... gttattgcagGTGGGTGTAGGTGACACCTCTAAAGGCAGCAGTCAGCCTAATGACCATTACTGCTGGATGAGACCAGAGGACATCGACTACAAAAGGCCAGTCACCGAGT

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 566

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 487