ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtccttctccctcgccgccggctcttttaaatctccccgcttattctttttgagcgggtgaggagatgcgtgattgttcctcttcttggcag

Basic information

species	Zea mays
transcript	GRMZM2G032315_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G032315_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g02340.2 (Oryza sativa), 5'ss of exon 1

GTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtc-cttctccctcgccgccggctc--ttttaaatctccccgcttattctttttgagcgggtgag-gagatgcgtgattgttcctcttcttggcag---------------
   || ||  ||   |     || ||   ||||| | ||| ||||| | ||||||||   |||||| |||||||||  ||||||||||||| ||||||||||||||  || | || || || |   ||   ||||   | ||   ||||    |    ||   |||| | |||||   ||||| ||  | || ||||                  
AGAGTTCGTAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacaccttcacccctatcttgattttgcttttcttggcttggggtg---gatttggtgtgtgagat---tgattatttattttgttggtgatttggtgacgagcag

upper sequence: GRMZM2G032315_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g02340.1 (Oryza sativa), 5'ss of exon 2

GTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtc-cttctccctcgccgccggctc--ttttaaatctccccgcttattctttttgagcgggtgag-gagatgcgtgattgttcctcttcttggcag---------------
   || ||  ||   |     || ||   ||||| | ||| ||||| | ||||||||   |||||| |||||||||  ||||||||||||| ||||||||||||||  || | || || || |   ||   ||||   | ||   ||||    |    ||   |||| | |||||   ||||| ||  | || ||||                  
--AGTTCGTAGATCAGCTCGAGCTCGCCGCCATGTCGTCCAGCGAGGTCGCCTGCACGCTCGCCGCCCTCATCCTCCACGACGATGGCATCCCCATCACCgtgcgttactacaccttcacccctatcttgattttgcttttcttggcttggggtg---gatttggtgtgtgagat---tgattatttattttgttggtgatttggtgacgagcag

upper sequence: GRMZM2G032315_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S152_152V6.1 (Physcomitrella patens), 5'ss of exon 1

GTCGTCCGGTGAGTGGAAGCCGCACGAAC-CCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtccttctccctcgccg--ccggctcttttaaatc-----tccccgcttattctttttgagcgggtgaggagatgcgtg--attgttcctcttcttggcag
    ||| ||          ||| |   | ||||| |   | |||||||||| ||||||||||||   |||||||||  ||| || |||||||||||||| ||  |      ||  |||     | ||   |||||  ||     |    | ||| | |   | |  |  ||| | | ||| ||     |||  | | |||     
-AGCTCCCGTCGTAATCTCTCGCTCTGTCACCATGTCGGTCAGCGAGCTTGCTTGCACCTACGCCTGCCTCATCCTCCACGATGACGGCATCGCCATCACTgtaagaatccttcaatcgttattctggagtttttaggtcgaaattttaggtttagtgtagatcactgtctgatgcgttgcttgcagcagtttatttactt-----

upper sequence: GRMZM2G032315_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S49_284V6.1 (Physcomitrella patens), 5'ss of exon 1

GTCGTCCGGTGAGTGGAAGCCGCACGAAC-CCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtccttctccct-cgccgccggctct--tttaaatctccccgcttattctttttgagc---gggtgaggagatgcgtgattgttcctcttcttggcag
  ||  |  |   | ||  ||| |    | ||||| |   | |||||||||||||||| ||||||  ||||||||||  ||| || ||||| |||||||| ||  |   | || |    |        | |  |||  || ||   | || ||    | |  |   ||   || || |  |   | |  | ||   | ||   
-CCGAGCTCTCCCTCGATCCCGTATCGCCACCATGTCGATCAGCGAGCTTGCCTGCACTTACGCCTGTCTCATCCTCCACGATGACGGCATTGCCATCACTgtaagcattccttcaagtgtttttatttttattttttatttctagggtttttgggctgggacttcggtccagaagctttgaattagagcatcgggtagga--

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|14701090|gb|BI233508.1|BI233508

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|14701520|gb|BI233938.1|BI233938

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|14701524|gb|BI233942.1|BI233942

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211369671|gb|FK974181.1|FK974181

EST:     CTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCAACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTC
genomic: CTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCA-CCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTC

EST: gi|84980713|gb|DW531062.1|DW531062

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|19822304|gb|BQ048328.1|BQ048328

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|14529509|gb|BI096642.1|BI096642

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211349249|gb|FK973355.1|FK973355

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|15198760|gb|BI423468.1|BI423468

EST:     CTGCACCTACGNCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CTGCACCTACG-CCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|29543928|gb|CB604308.1|CB604308

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211232580|gb|FK974101.1|FK974101

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|37394086|gb|CF634313.1|CF634313

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|15177496|gb|BI398435.1|BI398435

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211369677|gb|FK974187.1|FK974187

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCA
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCA

EST: gi|211232579|gb|FK974100.1|FK974100

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGNGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

EST: gi|211369682|gb|FK974192.1|FK974192

EST:     CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACC                         GCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC
genomic: CCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCC

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), 49 (downstream exon)
Score: 375

GTCGTCCGGTGAGTGGAAGCCGCACGAACCCATGGCCTCCGGCGAGCTTGCCTGCACCTACGCCGCTCTCATCCTCAGCGACGATGGCATCGCCATCACCgtgcgtcctt ... ttcttggcagGCCGAGAAGATCGCCACGATCGTGAAGGCGGCCAACATCAAGGTCGAGTCCTACTGGCCGGCCCTCTTCGCCAAGCTCCTGGAGAAGCGCAACGTCGAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 151

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 105