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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgcattcccaggcattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG

Basic information

species Zea mays
transcript GRMZM2G017365_T08
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 5
gtac-atgcattcccagg-cattgttggactcttcccttgtgcacattatacttttgtaccttgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
|||  |   | || || | || |||  | |||||||||| |  | ||| | || ||     |   | ||  | |   |||  |  |  ||   ||||   ||| | | ||    |||||||||||||||||||||||| |||||||||||||||||
gtatgagatactctcatgtcactgt--gcctcttcccttata-atatt-tgctctt-----tctgtagtcacgaa--gttagttatttttagttgacatgtgtaaatcctccatcagTGCAGGCTTGATACTAGCTTCCTGGTTTCTTTCATTGGG
















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|211206137|gb|FL466217.1|FL466217
EST:     ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
EST: gi|76014355|gb|DT941525.1|DT941525
EST:     ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATAC---G                         -G-AGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
EST: gi|166515273|gb|EG246371.1|EG246371
EST:     ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTT
genomic: ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTT
EST: gi|211384669|gb|FL388814.1|FL388814
EST:     ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
EST: gi|9953706|gb|BE640289.1|BE640289
EST:     TCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: TCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
EST: gi|211489499|gb|FL457182.1|FL457182
EST:     CCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: CCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
EST: gi|71442151|gb|DR823201.1|DR823201
EST:     ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAG                         TGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
genomic: ATGAATTACCACTCGGTCTGTTTGCATGTGTTGGCAGATTCAATACGGAGgtacatgcat ... tctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctggttgccacacgttgatattgattgactgacgcttgttatttctttcacagTGCAGGCTTGATACTAGCTTCTTGGTTTCTTTCATTGGG
                            gactgac  putative branch site (score: 2)
                                    cttgttatttctttc  CT-rich tract
                                        ttatttcttt  TA-rich tract