Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcggcgctcctcgacgtccttttctgacgcgcatgcaagcagatcgattggggcctgctgatttcgctggtcgcgtgcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT

Basic information

species Zea mays
transcript GRMZM2G152135_T06
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 3'ss of exon 2
gtacgcggc----gctcctcgacgtccttttctga-cgcgcat---gcaagcagatcgattggggcctgctgattt----cgctggtcgcgtgcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT
||| |||||     | || | |  ||| | | ||  |||  ||   |      |   |         |||| | ||    |||| |  | | |  ||||||| ||||||||||||||||||| ||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||||  ||||||||||||| |
gtaagcggccgtgacaccgcaaaatccctgtttgctcgctgataacgtccttgggatgtcaaaattttgcttaattttgacgctcgctggggggttgcagGTTGGGATGGAGTTCTGGGCGCAGTGGGCGCACCGCTCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGTGCGCGCGAGGGCCCGT

upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 2
lower sequence: Vv02s0025g00240.t01 (Vitis vinifera), 3'ss of exon 2
gtacgcggcgctcctcgacgtccttttctgacgcgcatgcaagcagatc---gattggggcctgctgatttc--gctggtcgcgtgcgtg--cagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT
||| |        | | |    ||||  ||       |||    | |||   ||     |       || ||  |  |||   ||   |   ||||| ||||||||||| |||||||||||||| |||   ||||| ||||| || || |||||||| |||||||||                            
gtaagttagctaacgctataagctttcatgtattaactgctgaaaaatccttgaagaaagatgatgaatctcaagtgggtgctgttgattatcagGTGGGGATGGAGTTTTGGGCGCGGTGGGCTCACAAAGCGCTCTGGCATGCTTCACTGTGGCATATGCACGAG----------------------------

upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 2
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
--------------gtacgcggcgctcctcgacgtccttttctgacgcgcatgcaagcagatcgattggggcctgctgatttcgctggtcgcgtgcgtg---------cagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT
                   |      | |||   ||   |||  |  |   |    | || | | || | | |   ||  ||   | |      |  |          ||||| || ||||||||||||||| | ||||| |||   || || |||||||||||| | |||||||||||||||                            
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG----------------------------

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|211062532|gb|FL481127.1|FL481127
EST:     TCCGTCGGGGCGGCG                         GTCGGGATGGAGTTTC-GGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGC
genomic: TCCGTCGGGGCGGCGgtacgcggcg ... gtgcgtgcagGTCGGGATGGAG-TTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGC
EST: gi|149107956|gb|EE292313.2|EE292313
EST:     TGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCG                         GTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCC
genomic: TGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCGgtacgcggcg ... gtgcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCC
EST: gi|211081393|gb|FL128737.1|FL128737
EST:     ATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCG                         GTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCC
genomic: ATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCGgtacgcggcg ... gtgcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcatgcaagcagatcgattggggcctgctgatttcgctggtcgcgtgcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT
                          tgctgat  putative branch site (score: 3)