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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccctccttttttaccctatcagttgttatcaaatatctcagtaagagctaatgtcataagttttggtcttgcagCCTTTCTATCTTATGCTGCCATCGTTCTTGCTGCAACATTTGTCCTCATATACTACTTTATTCCACGATATGGTCAGACACACATCATGGTCTATATTGG

Basic information

species Zea mays
transcript GRMZM2G110398_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110398_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g65986.1 (Oryza sativa), 3'ss of exon 4
-------gtaccctccttttttaccctatcag--ttgttatcaaatatctcagtaagagctaatgtcataagttttggtcttgcagCCTTTCTATCTTATGCTGCCATCGTTCTTGCTGCAACATTTGTCCTCATATACTACTTTATTCCACGATATGGTCAGACACACATCATGGTCTATATTGG
       ||  |   |  ||  | |  |  |   ||  |  | |   | | |    |  |||| ||  ||  |||||  |||||||||||||||| |||||| | ||  || |||||||| || ||||| ||||||| |  |||||| || | |||||||||||||||||| ||||| ||||||||
gtactgtgttgctgacaattgaatctcaaaaacattactggccacatttttatctcgtactaaggttttagcttttg-ccttgcagCCTTTCTATTTTATGCAGTCACTGTGCTTGCTGCGACTTTTGTGCTCATATTCCGCTTTATCCCCCAATATGGTCAGACACACATTATGGTGTATATTGG
















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|60340735|gb|DN207708.1|DN207708
EST:     GCGCACAATTGAATCTGTAGCAGAAGTGTGGGATCTTGCTACTGAACCAG                         CCTTTCTATCATATGCTGCCATCGTTCTTGCTGCAACATTTGTCCTCATAT
genomic: GCGCACAATTGAATCTGTAGCAGAAGTGTGGGATCTTGCTACTGAACCAGgtaccctcct ... ggtcttgcagCCTTTCTATCTTATGCTGCCATCGTTCTTGCTGCAACATTTGTCCTCATAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttgttatcaaatatctcagtaagagctaatgtcataagttttggtcttgcagCCTTTCTATCTTATGCTGCCATCGTTCTTGCTGCAACATTTGTCCTCATATACTACTTTATTCCACGATATGGTCAGACACACATCATGGTCTATATTGG
                          agctaat  putative branch site (score: 3)
      ttatcaaatat  TA-rich tract