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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatttttgccttatcgcatgccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT

Basic information

species Zea mays
transcript GRMZM2G178822_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g47225.1 (Oryza sativa), 3'ss of exon 1
gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatttttgccttatcgcatgccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
                                           ||||  ||| || |     |   | | ||  | |  || || ||  |   |    || ||| ||||||||||  |||||||||||||||| || |||||||| |||||||||||||||||||| |||||||| ||||| ||||||
------------------------------------------gtaac-tttcatattgacttactatttttaggtcacctttttcttatcaagtatgttgtctttgcagATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT

upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 1
gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatttttgccttatcgcatgccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
             ||| |   | ||   |  || |  |  |||  | ||  ||   || ||| | |    ||| ||  |   ||||   | |  ||    |     ||| | |||||| |||||||||||||| ||||| || ||||||||||| ||| | || || ||||| || | ||| ||||||
------------gtgagtatttgttgcagaagcctgaag-ttactatacccctcttttttactg-tcaaatatctttaaggtttttcttccttccgtgaac----acagGTACAAGTTAATTAAGGAAGTTGGTGATGGAACATTTGGGAGTGTTTGGAGAGCCATTAATAAGCAAAGTGGTGAAGTT

upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA01G35190.2 (Glycine max), 3'ss of exon 1
gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatttttgcctta-tcgcatgccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
                   |  ||||   || || || |   | ||       |||| |  |   || | |||| |   || |||||     | |  | |||     ||| | |||||| |||||||||||||| |||||||||||||||||||| ||| | ||||| ||||| || |  || ||||||
-------------------gtgatttc--tttctctttttgcagaagttactatagtccccc---ttgtttattgttagttttttttattaaaattacctgcaaatacagGTACAAGTTAATTAAGGAAGTTGGTGATGGGACTTTTGGGAGTGTCTGGAGAGCTATTAATAAGCAAACCGGTGAAGTT

upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatt--tttgccttatcgcat--gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
                            ||   |    |  |||   ||||  | |||    |   | | |||||||   | ||  | || || |  |  |  ||||   ||| |  | | | || ||||||||||| |||||||||||||| ||||| ||||| || || ||||| |||| ||| ||||||
----------------------------gtgagtgggcttgtatggaacttgcttgtt----aatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT

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|211443458|gb|FL042456.1|FL042456
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443465|gb|FL042463.1|FL042463
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443464|gb|FL042462.1|FL042462
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211441336|gb|FL042450.1|FL042450
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443461|gb|FL042459.1|FL042459
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443466|gb|FL042464.1|FL042464
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443460|gb|FL042458.1|FL042458
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443457|gb|FL042455.1|FL042455
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGANGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211441339|gb|FL042453.1|FL042453
EST:     TGAAGGGTAAAACTTGCACNAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|71328344|gb|DR800801.1|DR800801
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|113748605|gb|DW871977.1|DW871977
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGG
EST: gi|149089320|gb|EE178543.2|EE178543
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
EST: gi|211443463|gb|FL042461.1|FL042461
EST:     TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAG                         ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG
genomic: TGAAGGGTAAAACTTGCACAAGGCAGCTTTGATATTACAACAATGGATAGgtaactttta ... gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttctacagattctctattttagattatttttgccttatcgcatgccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
                                            tgccttc  CT-rich tract
          attctctattttagat  TA-rich tract