ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagttgtctgtcatctcgcttgtccttcgttttttgcgctcaatatgaacaagtagctaacctttcttgctgcattggtttggttaatcacacacatatatactactcacgcatcatcatccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGATGATGATCCTTCATTGTATTGTTCAGCTCAAG

Basic information

species	Zea mays
transcript	GRMZM2G059083_T05
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G059083_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g01340.2 (Oryza sativa), 3'ss of exon 3

gtaagttgtctgtcatctcgcttgtccttcgttttttgcgctcaata-tgaacaagtagctaacctttcttgctgcattggtttggttaatcacacacatatatactactcacgcatcatcatccgt-cagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGATGATGATCCTTCATTGTATTGTTCAGCTCAAG-
                                             || || || ||||  |   ||||    || |||   | |  |  ||  |  |    | |  | ||  |     ||  |   |  ||| ||| ||||| | ||||||||||||||||| ||||||   ||||||||||| || ||||||||||||||   ||   | ||  || |  | |  | |   
--------------------------------------------gtactgtactagtactt---cttttaatctccatc--tctattcgattcctaattactttctttcttgcattatatactgtatgtagGCATCGACTGGCTTGACTACAAGAAGCAGCTGAAGAAGTCGGAGCAATGGAATGTGGAAGTCTACTGATGGATATATAT-ATGTTAATAATTAATTAATCC

upper sequence: GRMZM2G059083_T05 (Zea mays), 3'ss of exon 2
lower sequence: AT1G20020.3 (Arabidopsis thaliana), 3'ss of exon 8

gtaagttgtctgtcatctcgcttgtccttcgttttttgcgctcaatatgaacaagtagctaacctttcttgctgcattggtttggttaatcacacacatatatactactcacgcatcatcatccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGAT-GATGATCCTTCATTGTATTGTTCAGCTCAAG
                                           || | || | | |   ||||  | |             ||  ||    |  ||   | |  ||| | ||             | ||| ||  ||||||| || |||||||||||| | ||||||   |||||||||||||| |||||||||||||  |  | ||||     | || |  |||  |  
-----------------------------------------gtaagaagagctaattaataacactccaattcttgaaacattcattgcataagcaataacactctaatgactttgtggtggtt-ttagGTATTGACTGGTTTGATTACAAGAAGCAGTTGAAGAAGGCAGAGCAATGGAACGTTGAAGTCTACTGATCAAAAAGCCTTTGACAT-TTCTGTAGCAAAGT

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|32926861|gb|CF031673.1|CF031673

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCACCTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|74238896|gb|DT646810.1|DT646810

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTCCAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32926372|gb|CF031184.1|CF031184

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|116819680|gb|EC862828.1|EC862828

EST:     ATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGACAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: ATGGAGAAGGGCATCGACGACATCATGCTCGACCTCG-CAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32924752|gb|CF029564.1|CF029564

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTGCAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13381685|gb|BG458465.1|BG458465

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32924659|gb|CF029471.1|CF029471

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCACCTGGTTGGACTACAAGAAGCACCTCCAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32924694|gb|CF029506.1|CF029506

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTGGG-GCCAAGGACG                         GGATCAACTGGGTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13558616|gb|BG549972.1|BG549972

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32829789|gb|CD969467.1|CD969467

EST:     TCGCGGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: TCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13249967|gb|BG360872.1|BG360872

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGATCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|161407577|gb|DW042401.1|DW042401

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13382262|gb|BG458937.1|BG458937

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|1713337|gb|AA143932.1|AA143932

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13515779|gb|BG518055.1|BG518055

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|116825460|gb|EC869184.1|EC869184

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13557876|gb|BG549232.1|BG549232

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAAAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|71316777|gb|DR795075.1|DR795075

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|110541331|gb|EE045251.1|EE045251

EST:     CATGGAGAAGGGCATCGACGACATCATGCTGGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|9954079|gb|BE640662.1|BE640662

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32925878|gb|CF030690.1|CF030690

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32926942|gb|CF031754.1|CF031754

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCACCTGGTTGGACTCCAAGAAGCAGCTCAAGAAGACCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32848675|gb|CD988356.1|CD988356

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCCAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|211166961|gb|FL442998.1|FL442998

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|14569158|gb|BI097481.1|BI097481

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAAAAACAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32920922|gb|CF025734.1|CF025734

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|5757291|gb|AI964578.1|AI964578

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|113657592|gb|DW813320.1|DW813320

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCG
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAA-CTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCG

EST: gi|13557960|gb|BG549316.1|BG549316

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGAAATACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32921172|gb|CF025984.1|CF025984

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCACCTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32926512|gb|CF031324.1|CF031324

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCACCTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|110536901|gb|EE041015.1|EE041015

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32926577|gb|CF031389.1|CF031389

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|5761833|gb|AI966986.1|AI966986

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAACAACAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|116819432|gb|EC862549.1|EC862549

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|14208406|gb|BG842084.1|BG842084

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|13558261|gb|BG549617.1|BG549617

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|116820971|gb|EC864239.1|EC864239

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32849555|gb|CD989236.1|CD989236

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|116821431|gb|EC864731.1|EC864731

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|5740424|gb|AI948114.1|AI948114

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32925793|gb|CF030605.1|CF030605

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCGAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32850378|gb|CD990059.1|CD990059

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|5757295|gb|AI964582.1|AI964582

EST:     CATGGAGAAGGGCATCGNCGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGGCTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

EST: gi|32926294|gb|CF031106.1|CF031106

EST:     CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACG                         GGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA
genomic: CATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGA

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 3 RNA-Seq libraries.

Block sizes: 45 (upstream exon), 15 (downstream exon)
Score: 13

GAGCTGCTCAAGAAGGACAACACCTACGTCTACATGTGCGGGCTCAAGGGCATGGAGAAGGGCATCGACGACATCATGCTCGACCTCGCAGCCAAGGACGgtaagttgtc ... catccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGATGATGATCCTTCATTGTATTGTTCAGCTCAAG

Block sizes: 49 (upstream exon), 17 (downstream exon)
Score: 152

Block sizes: 49 (upstream exon), 15 (downstream exon)
Score: 72

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

cattggtttggttaatcacacacatatatactactcacgcatcatcatccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGATGATGATCCTTCATTGTATTGTTCAGCTCAAG

                               tactcac  putative branch site (score: 72)
                       atatatacta  TA-rich tract

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttgtctgtcatctcgcttgtccttcgttttttgcgctcaatatgaacaagtagctaacctttcttgctgcattggtttggttaatcacacacatatatactactcacgcatcatcatccgtcagGGATCAACTGGTTGGACTACAAGAAGCAGCTCAAGAAGAGCGAGCAATGGAACGTCGAAGTCTACTGATGATGATCCTTCATTGTATTGTTCAGCTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
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