Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taagtttttttgttcatctatgactataaatggtttttttaatcacactgtggttggcatccatatgtttgctgatagaccatctctttcccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAACAGCTGCTCTTCCCCGAG

Basic information

species Zea mays
transcript GRMZM2G064426_T02
intron # 5
splice site 3'
intron type U2

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|60338423|gb|DN205396.1|DN205396
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|31664550|gb|CD573483.1|CD573483
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|463317|gb|T18284.1|T18284
EST:     TGGGTCAACAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|453328|gb|T15302.1|T15302
EST:     TGGGTCAACAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|71311885|gb|DR792413.1|DR792413
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|93017163|gb|EB642683.1|EB642683
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|71446912|gb|DR827962.1|DR827962
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGGACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|60397343|gb|DN230159.1|DN230159
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|71311886|gb|DR792414.1|DR792414
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|453331|gb|T15305.1|T15305
EST:     TGGGTCAACAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|149102150|gb|EE287580.2|EE287580
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|149102149|gb|EE188096.2|EE188096
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|60344410|gb|DN211383.1|DN211383
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|71315806|gb|DR794556.1|DR794556
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|149107729|gb|EE189603.2|EE189603
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
EST: gi|71315807|gb|DR794557.1|DR794557
EST:     TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAG                         TACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA
genomic: TGGGTCAGCAAGGAACATACAACCAAGGAATGGGTTATATGCAACCTCAGgtgattgaca ... ccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgtggttggcatccatatgtttgctgatagaccatctctttcccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAACAGCTGCTCTTCCCCGAG
                        tgctgat  putative branch site (score: 3)
                                  ccatctctttcccttc  putative PPT
                 atatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taagtttttttgttcatctatgactataaatggtttttttaatcacactgtggttggcatccatatgtttgctgatagaccatctctttcccttctccagTACCATAACGGAGATATCTCGAACTAATGAAGACATGGACCTTTTCTGCAACAGCTGCTCTTCCCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT