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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcgggtgtagcctatgttttattttttattatactatcaaatcaaaattttgattttcttgttttagaaaatctctctgattggcctcatgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGATGTACAAGGGTTTAATGTATATCACAAAAACCGTCTAATATTG

Basic information

species Zea mays
transcript GRMZM2G030596_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030596_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g36840.3 (Oryza sativa), 3'ss of exon 11
----tgcgggtgtagcctatgttttattttttattatactatcaaatcaaaattttgattttcttgttttagaaaatctctctgattggcctcatgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGATGTACAAGGGTTTAATGTATATCACAAAAACCGTCTAATATTG-------
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atatcttcaatgtactgaatgtttttattttccttaccagaaaatgtttgaatttgccatgattcttctgtgattaacttcctcatattgtttgtatt----agCTATCTGCAATAACCACCATTGGATTTGTCAAAGGCGCCCCAGAAATTGATGTACAAGGCTTTAATGTGTACCACAAGAATCGTTTAATAGCGGTGAGGA

upper sequence: GRMZM2G030596_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g36840.1 (Oryza sativa), 3'ss of exon 11
----tgcgggtgtagcctatgttttattttttattatactatcaaatcaaaattttgattttcttgttttagaaaatctctctgattggcctcatgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGATGTACAAGGGTTTAATGTATATCACAAAAACCGTCTAATATTG
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atatcttcaatgtactgaatgtttttattttccttaccagaaaatgtttgaatttgccatgattcttctgtgattaacttcctcatattgtttgtatt----agCTATCTGCAATAACCACCATTGGATTTGTCAAAGGCGCCCCAGAAATTGATGTACAAGGCTTTAATGTGTACCACAAGAATCGTTTAATAGCG
















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|31349834|gb|CD434191.1|CD434191
EST:     TGTATCGGGAGTGCGTGTTGTATAAACCGCAAATTGCTGGACTTACAGAG                         TCATCTGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGAT
genomic: TGTATCGGGAGTGCGTGTTGTATAAACCACAAATTGCTGGACTTACAGAGgtactgtata ... tgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGAT
EST: gi|31359814|gb|CD444171.1|CD444171
EST:     TGTATCGGGAGTGCGTGTTGTATAAACCGCANATTGCTGGACTTACAGAG                         TCATCTGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGAT
genomic: TGTATCGGGAGTGCGTGTTGTATAAACCACAAATTGCTGGACTTACAGAGgtactgtata ... tgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGAT
EST: gi|211528376|gb|FL093832.1|FL093832
EST:     TGTATCGGGAGTGCGTGTTGTATAAACCACAAATTGCTGGACTTACAGAG                         TCATCGGTAATCACA
genomic: TGTATCGGGAGTGCGTGTTGTATAAACCACAAATTGCTGGACTTACAGAGgtactgtata ... tgttttgcagTCATCGGTAATCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattttgattttcttgttttagaaaatctctctgattggcctcatgttttgcagTCATCGGTAATCACAACCATTGGGTTTGTTAAAGGTGCACCAGATATAGATGTACAAGGGTTTAATGTATATCACAAAAACCGTCTAATATTG
                              ctctgat  putative branch site (score: 4)
 attttcttgtttta  TA-rich tract