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

...tatcataaaaaaggcagcctgccaatcctttgttttttatatatactacaaacattacgcagggtatgcttctgttactgatttattcatcttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCAGAAGCAAAGGAACTGGCCCTTGCAG

Basic information

species Zea mays
transcript GRMZM2G017584_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|50333059|gb|CO528185.1|CO528185
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|149088812|gb|EE177939.2|EE177939
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|148954015|gb|EC899413.2|EC899413
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|32165048|gb|CD670366.1|CD670366
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|30032130|gb|CB833981.1|CB833981
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|71326297|gb|DR799838.1|DR799838
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
EST: gi|31910411|gb|CD651410.1|CD651410
EST:     GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTG                         GGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA
genomic: GTTATTTGCAAATAGCCAAGCAGAAAGATATATGCACATGGACTTGgtaagttcaa ... cttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacaaacattacgcagggtatgcttctgttactgatttattcatcttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCAGAAGCAAAGGAACTGGCCCTTGCAG
                              tactgat  putative branch site (score: 2)
                                    tttattcatcttcct  CT-rich tract
                                   atttattcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcataaaaaaggcagcctgccaatcctttgttttttatatatactacaaacattacgcagggtatgcttctgttactgatttattcatcttcctgtagGGTGCTGAGTTCGAGCTTGATACCATCAAAAAATTGTCAAAGGAGTATGCAGAAGCAAAGGAACTGGCCCTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA