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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttctcatctttgttcctagcaagcatagttgtacttttgtttctgtttgtgcagttaatgaaattctttggaaaaaaactgcatgtaattgccaacctgagaacatttagtttcttacagcactattcctacttgttcttaagtttacctaatgtactgagtcttctgtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTCGGACAG

Basic information

species Zea mays
transcript GRMZM2G088653_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G088653_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g25370.1 (Oryza sativa), 3'ss of exon 7
gtacttctc---atctttgttcctagcaagcatagttgtacttttgtttctgtttgtgcagttaatgaaattctttggaaaaaaactgcatgtaattgccaacctgagaacatt---tagtttcttacag-cac----tattcctacttgttcttaagtttacctaatgtactgagtcttctgtcaccc------tagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTCGGACAG
||| || ||   || ||| || |||| | |  ||   ||  |  |        || | || |    ||| || |||          |  | | |  ||| |  || ||||||||   |||||    |||| ||      ||| |||    |||  || ||| | ||||||||| | |  |  ||  ||       ||| ||||| || |||||||| |||||||||||||| || ||||||||||||||||||| ||| | ||| ||||||
gtatttttctcaatttttttttctagtatgtgtatcagtcttgctaaccaacattatacaatagtagaacttgttttttcc----tttaaaggaggtgcaattctaagaacattatatagttcaccacaggcatatcgcattactatgccttcgaaaatttgcgtaatgtactcattacttggttgccttccatttagGTGGGATTGTGGCATGTTCATGCTCAAATACATAGATTTCTACAGCAGAGATATGGGCCTTACTTTTGGACAG
















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|78118658|gb|DV537042.1|DV537042
EST:     CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGG                         ATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
genomic: CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
EST: gi|71305240|gb|DR788757.1|DR788757
EST:     CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGG                         ATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
genomic: CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
EST: gi|78084564|gb|DV512957.1|DV512957
EST:     CTTTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGG                         ATGGGAGTGCGGCATGTTTATGCTCAAATACATTGACTTTTACAGCAGAGA
genomic: CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
EST: gi|5439429|gb|AI820350.1|AI820350
EST:     CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGG                         ATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
genomic: CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
EST: gi|78025320|gb|DV493707.1|DV493707
EST:     CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGG                         ATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
genomic: CTCTCATGGAAGCAGGAAGGTGTCAAAAACCTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA
EST: gi|12971305|gb|BG267416.1|BG267416
EST:     CTTCCTTTGCAGGAGAATGG                         ATGGGACTGCGGCATGTTTATGCTCAAATCCATTGACTTCTACAGCAGAGA
genomic: CTTCCTTTGCAGGAGAATGGgtacttctca ... gtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattcctacttgttcttaagtttacctaatgtactgagtcttctgtcaccctagATGGGACTGCGGCATGTTTATGCTCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTCGGACAG
                        acctaat  putative branch site (score: 3)
                                       tcttctgtcaccct  putative PPT
                ttaagttta  TA-rich tract