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

gtaatgcactacatctctttgcaaccatttttttctttagctttgttgtgtgattgtggtataagaaaatgattcttctctgttaattttatgtttatttccttaacaagaactaacttttcacagctgtaatgctgtattaccattggttttgatagttatttgtttcacaccagAGCTGGGTGCATTCTCCTTCTGTATGGGCAGAGTAAATTCCATGAAGAAGCTACGCGGACCGTCGATTTTGTTGTGAACCAATCTGATTTCACTATTCAG

Basic information

species Zea mays
transcript GRMZM2G130868_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130868_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g03110.1 (Oryza sativa), 3'ss of exon 3
gtaatgcactacatctctttgcaaccatttttttctttagctttgttgtgtgattgtggtataagaaaatgattcttctctgttaattttatg-tttatttccttaacaagaactaacttttcacagctgtaatgctgtattaccattggttttgatagttatttgtttcacaccagAGCTGGGTGCATTCTCCTTCTGTATGGGCAGAGTAAATTCCATGAAGAAGCTACGCGGACCGTCGATTTTGTTGTGAACCAATCTGATTTCACTATTCAG
||||||  |||  |||||    || |||||||| ||||    || ||| ||   | || | |  || |  | |  ||       | |||| |  |  ||  |  ||   ||  ||||  |  || | ||     | | || || |        |   | |  |   |||   ||||| ||||| |   || ||||  | | ||| ||||||||||||    ||||||||||  | || ||||||||||||||||| |||||||||||||| ||||||
gtaatgtgctaactctcta-ataatcattttttccttt--tctttttgagttcatctgat-tgggatatcgctggtttaaatagagttttctactccatgccactattgagttctaagatggcataactactg-gttctaatatc--------taccaatgttacattttgtaccagGGCTGGATCTGTTATCCTCTTTTGTGGACAGAGTAAATTCGGACAAGAAGCTACTAGCACTGTCGATTTTGTTGTGAATCAATCTGATTTCACCATTCAG
















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|30306498|gb|CD001171.1|CD001171
EST:     GCAGATGTAGTAGGTCCTGTGTTGCTTGGGGTCTTCACACTTGCTATAAT                         AGCTGGGTGCATTCTCCTTCTGTATGGGCAGAGTAAATTCCATGAAGAAGC
genomic: GCAGATGTAGTAGGTCCTGTGTTGCTTGGGGTCTTCACACTTGCTATAATgtaatgcact ... ttcacaccagAGCTGGGTGCATTCTCCTTCTGTATGGGCAGAGTAAATTCCATGAAGAAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacagctgtaatgctgtattaccattggttttgatagttatttgtttcacaccagAGCTGGGTGCATTCTCCTTCTGTATGGGCAGAGTAAATTCCATGAAGAAGCTACGCGGACCGTCGATTTTGTTGTGAACCAATCTGATTTCACTATTCAG
                            ttttgat  putative branch site (score: 4)
                                        tttgtttc  putative PPT
                            ttttgatagttattt  TA-rich tract