ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

GGTAGGGAGGAACCGAATCGAGACATGGACTCGGAGCACTGGATCTCGCGCCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatatcccgccttctcctgcttctcctttcgctcagtaacagcagtacagcacgcgagcgatcctgttgctgatttgtgggctctggtcggattggttgcag

Basic information

species	Zea mays
transcript	GRMZM2G014066_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G014066_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g48190.1 (Oryza sativa), 5'ss of exon 1

-GGTAGGGAGGAACCGAATCGAGACATGGACTCGGAGCACTGGATCTCGCGCCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatatcccgccttctcctgcttctcctttcgctcagtaacagcagtacagcacgcgagcgatcctgttgctgatttgtgggct--ctggtcggattggttgcag--
  |||   || | | | |  ||  ||||||||||||||||||||||||| |||| |||||||||||||| | |||||||||||||||||| ||||||||||||      || | ||| ||||   ||| ||| |    ||  |       ||   ||   |    | | ||||||||||||||||   |   | || |||||||  ||    
TTGTACC-AGCAGCAGCAGGGAATCATGGACTCGGAGCACTGGATCTCGAGCCTCGCCGCCGCCAAGCGGTTCTACGCGGCGCAGCTCGGTCACGTCGACGgt------atgcggccatctcg-acttttccctcgaatcttt-------gtttggctttctgctgttgctgttgctgatttgtgatttgattcgttggattgggcgcgcag

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|74239572|gb|DT647486.1|DT647486

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|50331866|gb|CO526992.1|CO526992

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|71305275|gb|DR788771.1|DR788771

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|37422702|gb|CF649066.1|CF649066

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGAT
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGAT

EST: gi|149104466|gb|EE289912.2|EE289912

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|71422365|gb|DR805702.1|DR805702

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|149086120|gb|EE175660.2|EE175660

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|94472198|gb|EB701156.1|EB701156

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|211484731|gb|FL156865.1|FL156865

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|148958296|gb|EC904516.2|EC904516

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|211484733|gb|FL156867.1|FL156867

EST:     CTGGCCGCCGCCAAGCGTTACTACGCGGNCGCA-CTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CTGGCCGCCGCCAAGCGTTACTACGCGG-CGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|148990777|gb|EE032191.2|EE032191

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|89250646|gb|DY622432.1|DY622432

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|148963488|gb|EE014508.2|EE014508

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|71427572|gb|DR808622.1|DR808622

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|88752258|gb|DY536399.1|DY536399

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGGCACGTCGACG                         ATGTGCCCGGGATAGG-ACGGAGGA
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGA

EST: gi|211484736|gb|FL156870.1|FL156870

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGARGTGGAGATGGAGATTGAGGACGA
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGA

EST: gi|71317707|gb|DR795613.1|DR795613

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|211484735|gb|FL156869.1|FL156869

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|89247987|gb|DY619773.1|DY619773

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|149108982|gb|EE293079.2|EE293079

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

EST: gi|76936894|gb|DV174950.1|DV174950

EST:     CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACG                         ATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG
genomic: CCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACG

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: 64

GGTAGGGAGGAACCGAATCGAGACATGGACTCGGAGCACTGGATCTCGCGCCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatat ... ttggttgcagATGTGCCCGGGATAGGGACGGAGGAGGTGGAGATGGAGATTGAGGACGACGGGGGCTTGGAGATGGAGATGGAGATGGCGCTGGGGCTCGGGGACGCGAC

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 44

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 57

Block sizes: 44 (upstream exon), 45 (downstream exon)
Score: 53

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTAGGGAGGAACCGAATCGAGACATGGACTCGGAGCACTGGATCTCGCGCCTGGCCGCCGCCAAGCGTTACTACGCGGCGCAGCTCGGCCACGTCGACGgtgaggatatcccgccttctcctgcttctcctttcgctcagtaacagcagtacagcacgcgagcgatcctgttgctgatttgtgggctctggtcggattggttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC