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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctgttgaaaggcatattagctacttttggttgatgactgttgttgattgaatttccttggttctctttggtgatgattttgtgcttgtatttgaatagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCACTGGAGTGCTGTACGTGGTCATATTCAAGTTGCCGAACTACTTCTGAAAG

Basic information

species Zea mays
transcript GRMZM2G024437_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g43680.1 (Oryza sativa), 3'ss of exon 1
-tgctgttgaaaggcatattagctacttttggttgatgactgttgttgattgaatttccttggttctctttggtgatgattttgtgcttg-tatttgaatagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCACTGGAGTGCTGTACGTGGTCATATTCAAGTTGCCGAACTACTTCTGAAAG
 |||   |  | |   ||| | ||| |  |  |   |||  |   |      |  |   || |||      |   ||||||||||||||| | |||||| |||||||||||||   |||||||||||| |||||||| |||||||||||||||||||||||||||||||| || || |||||||| || || ||||||||||
ctgcatgtagacgaagtatca-cta-tgctattcagtgagcgcattctgcacatataattttgtttgaccggactatgattttgtgcttggtctttgaacagCATGGAGCAGATGTAAATGCTGTGGACCACACTGGGCAAACAGCACTTCACTGGAGTGCTGTACGTGGACACATCCAAGTTGCTGAGCTTCTTCTGAAAG

upper sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv11s0118g00470.t01 (Vitis vinifera), 3'ss of exon 1
tgctgttgaaaggcatattagctacttt-tggttgatgactgttgttgattgaatttccttggttctctttggtgatgattttgtgcttgtatttga----atagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCACTGGAGTGCTGTACGTGGTCATATTCAAGTTGCCGAACTACTTCTGAAAG
   | ||  |     | ||    | ||  | |    ||| ||   |||| ||       |  | | | ||   | |||  ||  || || | |   |    | ||||||||| |||   |||||| || ||||||||||| || ||||||||||||||| ||||||| || |||   || || ||||| || ||| | ||  |||
---tatttcattttttttttctcatttcattgagattgattgcatttgagtgggcaaatt--ggtgtgttaattaatggcttattgtttctgtcctatatgacagCATGGAGGAGATGTAAATGCAGTAGATCACACTGGGCAGACAGCACTTCACTGGTGTGCTGTGCGGGGTGCAATCCAGGTTGCAGAGCTATTACTCCAAG
















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|211308634|gb|FL245981.1|FL245981
EST:     AGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAG                         CATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCAC
genomic: AGTGGGCCGCGCTCAACAACCGCGTCGCCGCCGCGCAGTACATCCTCGAGgttgccctct ... atttgaatagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattgaatttccttggttctctttggtgatgattttgtgcttgtatttgaatagCATGGAGCAGACACAAATGCTGTGGATCACACTGGACAAACAGCACTTCACTGGAGTGCTGTACGTGGTCATATTCAAGTTGCCGAACTACTTCTGAAAG
 tgttgat  putative branch site (score: 4)
                                            tatttgaata  TA-rich tract