ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

CCCACTGTTGCCTCCTCCACAGTGTGAATCGAAGCTGATTGCTAGAGCAGACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtggttgcccttttttatatatatatctgtttatataacctgaattcttgtgctgctgtagtaaatgagtttgtcgtaatataggcaagctgg...

Basic information

species	Zea mays
transcript	GRMZM2G150014_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G150014_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g57540.1 (Oryza sativa), 5'ss of exon 3

CCCACTGTTGCCTCCTCCACAGTGTGAATCGAAGCTGATTGCTAGAGCAGACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtggttgcccttttttatatatatatctgtttatataacctgaattcttgtgctgctgtagtaaa--tgagtttgtcgtaatataggcaagctgg-
 |||||  |||||||||||||||||||||| ||| ||||  ||||  | || ||||||||||| |||||||| |||||  ||||||| || |||||||||||| | | | | |    || ||| ||| |||   ||  |   | || || | | |  |  |     | |||   |  ||||||      ||  |  || ||  
TCCACTACTGCCTCCTCCACAGTGTGAATCAAAGTTGATAACTAGGCCTGATGATACTGAAGAGGTGGTAAAGGAGCGATTGCGTGTTTATCATGATTTGgtatgttctagcttgtgttatttttatttat---tgaattcctcacttgtaatttgctagtaaaagactaaggctttgtttgtttgggcattcggcagttgca

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|32938115|gb|CF042934.1|CF042934

EST:     ACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|211475867|gb|FL467332.1|FL467332

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|32851154|gb|CD990835.1|CD990835

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|71771574|gb|DR969511.1|DR969511

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|211305869|gb|FL436424.1|FL436424

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|14243925|gb|BG841559.2|BG841559

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|78088919|gb|DV517312.1|DV517312

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|101386808|gb|EB815421.1|EB815421

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTTTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|21331461|gb|BQ486842.1|BQ486842

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|76284881|gb|DV024449.1|DV024449

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|9255052|gb|BE345520.1|BE345520

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|71760794|gb|DR958731.1|DR958731

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|9730993|gb|BE509745.1|BE509745

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|60337215|gb|DN204188.1|DN204188

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|9255053|gb|BE345521.1|BE345521

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|91048681|gb|EB159099.1|EB159099

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|71762227|gb|DR960164.1|DR960164

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTTTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|211305868|gb|FL436423.1|FL436423

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|101388897|gb|EB816430.1|EB816430

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|93284435|gb|EB676699.1|EB676699

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|9255025|gb|BE345493.1|BE345493

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|71771844|gb|DR969781.1|DR969781

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTTTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|76928642|gb|DV171706.1|DV171706

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTTTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|60345933|gb|DN212906.1|DN212906

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

EST: gi|101388895|gb|EB816429.1|EB816429

EST:     ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTG                         ACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC
genomic: ACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTC

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), 46 (downstream exon)
Score: 38

CCCACTGTTGCCTCCTCCACAGTGTGAATCGAAGCTGATTGCTAGAGCAGACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtg ... atctttgcagACTGAACCAGTGGAGGAGTTCTACAGAGCACGTGGGAAACTGCTGGAGTTCAATCTGCCTGGTGGGATACCCGAATCATGGCCGAAGTTACTGCAGGCCC

Block sizes: 46 (upstream exon), 46 (downstream exon)
Score: 57

Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 57

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 74

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCACTGTTGCCTCCTCCACAGTGTGAATCGAAGCTGATTGCTAGAGCAGACGATACTGAAGAAGTGGTAAAAGAGCGGCTGCGTGTGTACCATGATTTGgtagggtgtggttgcccttttttatatatatatctgtttatataacctgaattcttgtgctgctgtagtaaatgagtttgtcgtaatataggcaagctgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT