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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttatctggttgagaatttgcaacactgatttataagctcaccaatctcatgaatgttatgcaagaaacttattctgcatttttccccctgattctgcagTTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAATTCATCTGCATCGGGCGGTTCTCTGCCGTATCCTTCCAAGTCCTAGGCC

Basic information

species Zea mays
transcript GRMZM2G147446_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147446_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g05830.1 (Oryza sativa), 3'ss of exon 5
-------tttatctggttgagaatttgcaacactgatttataagctcaccaatctcatgaatgttatgcaagaaacttattctg-catttttccccctgattctgcagTTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAATTCATCTGCATCGGGCGGTTCTCTGCCGTATCCTTCCAAGTCCTAGGCC
       || ||    |||||    ||    | |  ||| || |       | |||||   |   ||   |    ||||   || |||||||  |    |||||||||||||||||| | ||||||||  |||| ||||||||||||||||||||||||||||||||||| || ||||| ||||||||||||||||||||||| ||||
tagaatattgatgaatttgagtgcatgtttgatttgtttgtatgtat-ttgacctcatattttccattttat---cttacgatggcatttttatc----attctgcagTTTTTCCTGACTCTCTCATGTGTCATTGCCATTGGTGTTAATCTGAGCCAATTCATCTGCATTGGTCGGTTTTCTGCCGTATCCTTCCAAGTCCTGGGCC

upper sequence: GRMZM2G147446_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g05780.3 (Oryza sativa), 3'ss of exon 5
----tttatctggttgagaatttgcaacactgatttataagctcaccaatctcatgaatgttatgcaagaaacttattctgcatttttccccctgattctgcagTTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAATTCATCTGCATCGGGCGGTTCTCTGCCGTATCCTTCCAAGTCCTAGGCC
    ||    |      |||||||   || || || ||  | |    | |       |  || | ||      | ||  | |  |  |     |  ||| ||||||||||||| | ||||||||  |||| |||||||||||||||||||||||||| |||||||| || ||||| ||||||||||||||||||||||| ||||
ttggttggaatatggatgaatttgagtcaatgcttgatttgtttgtaatttgacctcaaattttccat----ttcatcttacgatggtttttattgttccgcagTTTTTCCTGACTCTCTCATGTGTCATTGCCATTGGTGTTAATCTGAGCCAATTTATCTGCATTGGTCGGTTTTCTGCCGTATCCTTCCAAGTCCTGGGCC
















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|78115997|gb|DV534385.1|DV534385
EST:     TGTTGACAGGCAAAAGGGTGGATCAGTTCAGTTTGTCATCGCTTGCTCTG                         TTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAA
genomic: TGTTGACAGGCAAAAGGGTGGATCAGTTCAGTTTGTCATCGCTTGCTCTGgtaaggacag ... gattctgcagTTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcatgaatgttatgcaagaaacttattctgcatttttccccctgattctgcagTTTTTCCTGGCACTCTCATGCTTCATCGCCATTGGTGTTAATCTGAGCCAATTCATCTGCATCGGGCGGTTCTCTGCCGTATCCTTCCAAGTCCTAGGCC
                                         ccctgat  putative branch site (score: 4)
                                  tttttccccctgattc  CT-rich tract
                    aaacttatt  TA-rich tract