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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtagatcctgttttccacaaatgactatcgataatgttctcatatggtttactttctactcggataaagttttcatcagttggtctctgtctatgtctacgtctgatggaatgcagGTTTCTCCTTCTACAGTGAGGGGTACATATGGTAGCTTTGTTCAGATTGCAACCTGCCTTGGAATTATAGTATCACTACTCATTGGTACACCTGTCAAAG

Basic information

species Zea mays
transcript GRMZM2G412899_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G412899_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 6
gtatgtagatcctgttttccacaaatgactatcgataatgttctcatatggtttactttctactcggataaagttttcatcagttggtctctgtctatgtctacgtctgatggaatgcagGTTTCTCCTTCTACAGTGAGGGGTACATATGGTAGCTTTGTTCAGATTGCAACCTGCCTTGGAATTATAGTATCACTACTCATTGGTACACCTGTCAAAG
|||||||  |  |||| | |||  ||| ||           ||||  || || |   |      |  |||    | | ||   || ||  || | | |   ||       | | || |||||||||||| || |||||||||| |||||||| ||||||||||||||||||||||||||||||||  ||||||| || || |||||||||||||| || |
gtatgtaattggtgttatgcacctatgcct--------caatctctgattgtctgtat------caaatattaatcttattcatttgtacctttttct---tataatcccttggatccagGTTTCTCCTCCTTCAGTGAGGGGCACATATGGGAGCTTTGTTCAGATTGCAACCTGCCTTGGAATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGG
















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|71766867|gb|DR964804.1|DR964804
EST:     GAACAGGGATGGGATTGGGTCCACCAGTAGCTTCACTTTATATAACGGAG                         GTTTCTCCTTCTACAGTGAGGGGTACATATGGTAGCTTTGTTCAGATTGCA
genomic: GAACAGGGATGGGATTGGGTCCACCAGTAGCTTCACTTTATATAACGGAGgtatgtagat ... tggaatgcagGTTTCTCCTTCTACAGTGAGGGGTACATATGGTAGCTTTGTTCAGATTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggataaagttttcatcagttggtctctgtctatgtctacgtctgatggaatgcagGTTTCTCCTTCTACAGTGAGGGGTACATATGGTAGCTTTGTTCAGATTGCAACCTGCCTTGGAATTATAGTATCACTACTCATTGGTACACCTGTCAAAG
                                       gtctgat  putative branch site (score: 4)
     aagtttt  TA-rich tract