ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcacttcctctctcaatcctaatgaaggcatttcggagtcatgtgatgtgcgcatgctacag

Basic information

species	Zea mays
transcript	GRMZM2G069676_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 17

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtag--ttctcttcacttcctct-----ctcaatcctaatga--aggcatttcggagtcatgtga-tgtgcgcatgctacag
                      ||||| ||||||||||||||||| ||||||||  || || | || || ||||| || ||||||||||| ||||| |||||     || |||  |    |||     | ||| |||    |  |  |||||    | |||||||   || |||||| ||||
----------------------GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAGgtcagcctccctttgccctatctgaaatcccaagccttccaatcatccatttaactgacatgtgaacatgtgcatgc-acag

upper sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 16

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcacttcctctctcaatcctaatgaaggcatt-tcggagtcatgtgat--gtgcgcatgctacag----------------
                      ||  | ||||| || |||||||| |||||| | || ||  | || || ||||||||||| |||||||| ||||||||||||     | ||||  |   | |         |  | ||| | |   |   |||  |    | |  |  ||  |                 
----------------------GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggccctcacggctagtgttggggtgtttatatgcaatattaaaacaatgcaactgattcagagactgaacatacttgttactgtag

upper sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcacttcctctctcaatcctaatgaaggcatttcggagtcatgtgatgtgcgcatgctacag----------------
                      ||  | ||||| || |||||||| |||||  | || ||  | || || ||||||||||| |||||||| ||||||||||||    || ||||  |   | |   |  |  | | |  || |   |   |||  |      ||  ||                    
----------------------GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcacagctagtgttggtgttt-ttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag

upper sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcactt--cctctctcaatcctaatga--aggcatt---tcggagtcatgtgatgtgcgcatgctacag
                       |  | ||||| || | |||||| |||||  | || || || ||||| |||||||||||||||||||| ||||| ||||||    | |  |     | |  || | |   | |    |  | ||   ||| | |  |    ||  ||||        
----------------------ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaactttcactcgaatttttcaattggacgcag-------

upper sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 5'ss of exon 17

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgta--gttctcttc--acttcctctctcaatcctaatga--aggcatttcggagtcatgtgatgtgcgcatgctacag
                      ||  | | ||| || | ||| || |||||| | || || ||||| || ||||| |||||||||||||| ||||||||||||   | | |||   | |  | |  | | |  |||| |  ||  |||| | | | |    || || | |  | | ||
----------------------GTTCGAGCTTCTGGCTTTGGGGGATGGTTCCTTCTAAGACTCTCCCTTCATGACCCTGTTCTTCCCCTTAACATTGAGgtataatcccctttcaagtgtcacgttaagttataattaccagatattttgcactgaca--atatgagaactccatag

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|211062091|gb|FL465327.1|FL465327

EST:     TCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAG                         GCACAGAGTAACGATGATGCGATTAAGCTGGGGCTTGCGGTTCTTGCTGCT
genomic: TCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctct ... catgctacagGCACAGAGTAACGATGATGCGATTAAGCTGGGGCTTGCGGTTCTTGCTGCT

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: 47 (upstream exon), 49 (downstream exon)
Score: 142

TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctct ... catgctacagGCACAGAGTAACGATGATGCGATTAAGCTGGGGCTTGCGGTTCTTGCTGCTGTGAATGAATTTCCAGCACTGGATGTGACGGCACTGAACAAATTCGTGC

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 184

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 316