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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatccttacatggccgtcaagcttagctgttcaaaattattcctgcaatatttgtttcttgattttccattatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAGAGTTTGTTGTCAGACCAGAACAGGAGTATAGCGACCCTGGCAATTACTA

Basic information

species Zea mays
transcript GRMZM2G012501_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 8
gttatccttacatggccgtcaagcttagctgttcaaaattattcctgcaatatttgtttcttgattt-tccattatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAGAGTTTGTTGTCAGACCAGAACAGGAGTATAGCGACCCTGGCAATTACTA
||||||| | ||||    | || ||| |   || ||| ||  ||     || | | | |||||||||  |  |||| ||||||||||||| |||||| ||| |||| |||||||||||||||||||||||||| ||| || |||| |||||||| ||||||||||| ||||||||||| ||||
gttatccctgcatgatgtttaatctttgacatttaaattttctcagcttatgtctatatcttgatttgcctgttatctcgcagGTTGCTATGACACGCCCTTTGGCAGTGACAAACTGCAATGTGGACTTGGAAAGTCTGATGTCGGACCAGAATAGGAGTATAGCAACCCTGGCAATCACTA
















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|32942885|gb|CF047704.1|CF047704
EST:     GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAG                         GTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
genomic: GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAGgttatcctta ... tatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
EST: gi|67016076|gb|CO444825.1|CO444825
EST:     GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAG                         GTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
genomic: GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAGgttatcctta ... tatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
EST: gi|67030306|gb|CO459055.1|CO459055
EST:     GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAG                         GTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
genomic: GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAGgttatcctta ... tatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
EST: gi|32945171|gb|CF049990.1|CF049990
EST:     GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAG                         GTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG
genomic: GTTCATCCAAGCCTGTGCTTCGATTTGCTGCTGTCCGGACTCTCAATAAGgttatcctta ... tatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgttcaaaattattcctgcaatatttgtttcttgattttccattatatcgcagGTTGCTAGGACACGACCTCTGGCGGTGACAAACTGCAATGTGGACTTGGAGAGTTTGTTGTCAGACCAGAACAGGAGTATAGCGACCCTGGCAATTACTA
                               tcttgat  putative branch site (score: 4)
                                     ttttccatt  CT-rich tract
                     aatatttgtttctt  TA-rich tract