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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaggcagtttgttacaatgacttcaggatcttctgctttttatgacttccactttcttcattgatggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCCACCATGGTCGCAGGGCTCTATTTCTTTGACCACACTGTAGCTTCCCAGA

Basic information

species Zea mays
transcript GRMZM2G302559_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G302559_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g08430.1 (Oryza sativa), 3'ss of exon 6
gtaattaggcagtttgttacaat-----gacttca----------ggatcttctgctttttatgacttccactt--tcttcattgatggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCCACCATGGTCGCAGGGCTCTATTTCTTTGACCACACTGTAGCTTCCCAGA
||  | | ||||||| ||   ||     ||  | |           ||| |  |   | ||   | ||  |  |  | |||  |  || | ||| ||||| ||||||| |||||| ||  | | |||||  ||||||||||||||||    ||||| || ||||||||||||||||| || | ||||||||| ||  
gttgtgatgcagtttattttgattccaggatctaatgtaaaatgtagatatattcgatgttggaattttgatgtgcttttcgctattgattttgcagGATTTGTTTTCTGTCCCTCCACCATACATATTTTTGGCTATTGTGCCTGCTGTAATGGTTGCCGGGCTCTATTTCTTTGATCATAGTGTAGCTTCACAAC
















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|87154220|gb|DY399009.1|DY399009
EST:     CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAA                         GATTTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
genomic: CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAAgtaattaggc ... ggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
EST: gi|22545328|gb|BU097687.1|BU097687
EST:     CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAA                         GATTTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
genomic: CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAAgtaattaggc ... ggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
EST: gi|26455321|gb|CA826904.1|CA826904
EST:     CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAA                         GATTTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
genomic: CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAAgtaattaggc ... ggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
EST: gi|87154479|gb|DY399268.1|DY399268
EST:     CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTATCAAAA                         GATTTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
genomic: CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAAgtaattaggc ... ggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
EST: gi|26454967|gb|CA826550.1|CA826550
EST:     CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAA                         GATTTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC
genomic: CCCCACTTCCTTGGGAACCCAAGTCGCTCCAGCATTGGACAGTAGCAAAAgtaattaggc ... ggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcaggatcttctgctttttatgacttccactttcttcattgatggtcttgtagGATCTGTTTTCAGTCCCTACAGTACATATATTCCTGGCTATTGTGCCTGCCACCATGGTCGCAGGGCTCTATTTCTTTGACCACACTGTAGCTTCCCAGA
                                      cattgat  putative branch site (score: 4)
                tttttatga  TA-rich tract