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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattccctcgtatcaattgtcggtgcctgttgattttaggtggtttctattatttgattggcccataacacttgtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCCATCGCAATTGTTATGGCTAGAAATCCGCACTTGAG

Basic information

species Zea mays
transcript GRMZM2G000052_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000052_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g53195.1 (Oryza sativa), 3'ss of exon 5
gtattccctcgtatcaattgtcggtgcctgttgattttaggtgg-----tttctattatttgattggcccataacacttgtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCCATCGCAATTGTTATGGCTAGAAATCCGCACTTGAG
||||| ||| || ||| || ||  ||| | ||| | ||   ||      ||| |  || ||| ||  ||| ||||| || | ||| |||||||||||| ||||||||||||  || ||||| || ||||| || || ||||| |||||||||||||  |||||||| ||||||||
gtattaccttgtttcagtt-tccatgcttattgttgttgcatgataatatttttggtacttgtttttccc-taacatttatatgtgcagACTGGCAAACTGAGGGAAGAAACTAAGGAAGACATTTCTATTGCGAAGGCCATTGCAATTGTTATGGAGAGAAATCCACACTTGAG
















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|71764900|gb|DR962837.1|DR962837
EST:     AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAG                         ACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
genomic: AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAGgtattccctc ... gtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
EST: gi|60356234|gb|DN223207.1|DN223207
EST:     AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAG                         ACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
genomic: AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAGgtattccctc ... gtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
EST: gi|211300846|gb|FL383949.1|FL383949
EST:     AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAG                         ACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
genomic: AAGAGTTGGTAGAAAAGCTTGGGAAGGTGTTTGAGAAGATACTGGAAGAGgtattccctc ... gtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
EST: gi|211514296|gb|FL420360.1|FL420360
EST:     AGAGTTGGTAGAAAAGCTTGGGGAAGGTGTTTGAGAAGATACTGGAAGAG                         ACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC
genomic: AGAGTTGGTAGAAAAGCTTGGG-AAGGTGTTTGAGAAGATACTGGAAGAGgtattccctc ... gtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgattttaggtggtttctattatttgattggcccataacacttgtgtgtacagACTGGCAAATTGAGGGAAGAAATCAATGAAGATATGTCTATCGCAAAAGCCATCGCAATTGTTATGGCTAGAAATCCGCACTTGAG
                                  ccataac  putative branch site (score: 3)
               tttctattatttgatt  TA-rich tract