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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttactaaacaaatcacgtctttggtcctatacttattgtctttctaatatactttctgtttgcaacttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTTCATCGTTTCGAATTCTTTAGACGGTTGAGGCTTCCTGAATAGTTCCCAT

Basic information

species Zea mays
transcript GRMZM2G079428_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079428_T05 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os10g34400.2 (Oryza sativa), 3'ss of exon 10
---gtgaatttactaaacaaatcacg--tctttggtcctatacttattgtctttctaatatactttctgtttgc-aacttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTTCATCGTTTCGAATTCTTTAGACGGTTGAGGCTTCCTGAATAGTTCCCAT
   |  || |    | | ||  |||   || |||    |  ||    |   ||| |   | |  || ||||||  || |||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||| ||| ||||||||||| ||||||| ||||||||| ||||| |   
gttgaaaactattcatataatgcacatttccttgtatattcacgagatacttttttttaacaggttttgtttgtgaatttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCAAACTTTCATCTTTTTGAATTCTTTAGGCGGTTGAAGCTTCCTGATTAGTTTCAGA
















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|194716856|gb|FK934015.1|FK934015
EST:     TCCAAAACCCTCGATGGGTTGATGGAGAGCTTTTGATAATAGATGGAAAG                         TTCATCAGAGATGGTCCTGTGATGGCTTTCTTTTACTGGACATCTAATTTT
genomic: TCCAAAACCCTCGATGGGTTGATGGAGAGCTTTTGATAATAGATGGAAAGgtgaatttac ... caacttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTT
EST: gi|61236809|gb|DN586535.1|DN586535
EST:     TCCAAAACCCTCGATGGGTTGATGGAGAGCTTTTGATAATAGATGGAAAG                         TTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTT
genomic: TCCAAAACCCTCGATGGGTTGATGGAGAGCTTTTGATAATAGATGGAAAGgtgaatttac ... caacttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttggtcctatacttattgtctttctaatatactttctgtttgcaacttgcagTTCATCAGAGATGGTCCTGTGATAGCTTTCTTTTACTGGACATCTAATTTTCATCGTTTCGAATTCTTTAGACGGTTGAGGCTTCCTGAATAGTTCCCAT
                        ttctaat  putative branch site (score: 2)
                       tttctaatatacttt  TA-rich tract