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

gtacgtaagcagagcacatcgatcgatcatcggctcttgtcatcttcaacctccctccctccgtccgatccagtccactgcctaagaatccatccaactgcatgtctgatcatcgtcttgtatccatgacagGGCATGGTGCAGGAGCCCGGGTCCAGCGGCGGCCCGAGGACGCGGCTGCTGGTGCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGGCGAGATAC

Basic information

species Zea mays
transcript GRMZM2G139372_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139372_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g02820.1 (Oryza sativa), 3'ss of exon 4
gtacgtaagcagagcacatcgatcgatcatcggctcttgtcatcttcaacctccctccctccgtccga-tccagtccactgcctaagaatccatc-caactgcatgtctgatcatcgtcttgtatccatgacagGGCATGGTGCAGGAGCCCGGGTCCAGCGGCGGCCCGAGGACGCGGCTGCTGGTGCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGGCGAGATAC
                             |  ||     |||||    | | |  |  ||   || || ||     |     || |  ||  ||| |     |   |  | |      |||| || | || ||||    || | ||||| | |    | |||| ||| | | ||||||||||||||| ||||||||||||||||||||||||||||||||| ||||||| 
----------------------------gtaagcaagattcatcactgaacccagtagctgaatctgaatctgaatctgaatctgaatatgaatctctgtcactgatgaggtgtgttgcttggatgcgtggcagGA---GGAGGAGGAGGCTGATGGCGGCGGTGGCGCCAAGACGCGGCTGCTGGTCCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGTCGAGATAT
















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|149082525|gb|EE171719.2|EE171719
EST:     CGATCTGGCAGAGCAGCCGCGTGCCAGAGCTCCAAACAGGTTACTCCAGT                         GGCATGGTGCAGGAGCCCGGGTCCAGCGGCGGCCCGAGGACGCGGCTGCTG
genomic: CGATCTGGCAGAGCAGCCGCGTGCCAGAGCTCCAAACAGGTTACTCCAGTgtacgtaagc ... tccatgacagGGCATGGTGCAGGAGCCCGGGTCCAGCGGCGGCCCGAGGACGCGGCTGCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcctaagaatccatccaactgcatgtctgatcatcgtcttgtatccatgacagGGCATGGTGCAGGAGCCCGGGTCCAGCGGCGGCCCGAGGACGCGGCTGCTGGTGCCCGTCGCCGGCGGCCTCGTCGAGCTCTTCGCGGCGAGATAC
                          gtctgat  putative branch site (score: 4)
     taagaat  TA-rich tract