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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagataaaatgattgtgttggtgcgtatacgtgcactatcttaaagattgactttgtgtatacgtgcacgaaggtaatcttgtgcataggatacgttcttttattaataagctgtcggttaatggatacctcgatataccccccctaagtatttgttggtcttttgacagGTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTTGTGTTTCCTTTCAAATATGTTCTTGCATTCTTTACATGTGATCTTTTCA

Basic information

species Zea mays
transcript GRMZM2G141185_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141185_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g64870.1 (Oryza sativa), 3'ss of exon 10
gtaagataaaatgattgtgttggtgcgtatacgtgcactatcttaaagattgactttgtgtatacgtgcacgaaggtaatcttgtgcataggatacgttcttttattaataagctgtcggttaatggatacctcgatata-ccccccctaagtatttgttggtcttttgacagGTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTTGTGTTTCCTTTCAAATATGTTCTTGCATTCTTTACATGTGATCTTTTCA
                                                                                  | || ||   |||  |    || | ||  |         |||   ||||    |  ||   |    ||| | ||  ||| || | |||||||| || || ||||| ||  ||||||| |||||||| || || || ||||||||| ||||||||||||||||||||||||| ||||  | |||||  ||||
---------------------------------------------------------------------------------gtatg-atgaaataaatctcattctcaactaa-----aaataacaaatacgagtaagtaattcttgataattcttgtttgatcatatgacagGTAACGACTCAGGTTGCTCTTGTTCTTCTAGCATCATCTGCTGTTCTTCTTGTGGTTCCTTTCAAATATGTTCTTGCATTTTTTATGTTTGATCAATTCA
















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|71433098|gb|DR814148.1|DR814148
EST:     ATGTCTCCCTGCTGAAGATCCGCACGATCCTTCTAGCTGGCCAACCTGAG                         GTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTT
genomic: ATGTCTCCCTGCTGAAGATCCGCACGATCCTTCTAGCTGGCCAACCTGAGgtaagataaa ... cttttgacagGTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTT
EST: gi|60343670|gb|DN210643.1|DN210643
EST:     ATGTCTCCCTGCTGAAGATCCGCACGATCCTTCTAGCTGGCCAACCTGAG                         GTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTT
genomic: ATGTCTCCCTGCTGAAGATCCGCACGATCCTTCTAGCTGGCCAACCTGAGgtaagataaa ... cttttgacagGTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggttaatggatacctcgatataccccccctaagtatttgttggtcttttgacagGTGACAACACAGGTCGCGTTTGTTCTCCTAGCATCCTCAGCCGTCCTTCTTGTGTTTCCTTTCAAATATGTTCTTGCATTCTTTACATGTGATCTTTTCA
 ggttaat  putative branch site (score: 4)
                                            tctttt  putative PPT
                              taagtattt  TA-rich tract