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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtgagttcgtctttcctgatcaattcagatctaggcctctacagtgacgctaggctgtattttgattccaccatccgctggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCGGCACTTCCCTGAGCCAACACGTCTTGGCATCAGTTCTCCGGAGTCTCAA

Basic information

species Zea mays
transcript GRMZM2G029566_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029566_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g10310.1 (Oryza sativa), 3'ss of exon 13
gtactgtgagttcgtctttcctgatcaattcagatctaggcctct-----------acagt----------gacgctaggctgtattttgattcca-ccatccgc-tggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCGGCACTTCCCTGAGCCAACACGTCTTGGCATCAGTTCTCCGGAGTCTCAA--
|||| |  |  || |   || |||||||  || || |||  ||||           |||            ||  | | ||| ||| ||||| ||| |||||  | || || | |||||||||||||||||  | || || ||||||||||| |||||||||||||| |||||||| ||| ||||||  |   ||    ||    |     |||||   
gtacagcaatctcataagtcttgatcaaaccaaatttagagctcttttcgtctaaaacaaatatctttgaagattccatgctctatcttgatgccatccatctacatgtttttacagGGTGAAGGCTACAATGTCGGATTCGGAACCTGCACTGGGAAGGTTCTGCCTGCACTTCCATGATCCAACATATAGAGGA--TAGCCTGCTTTCATCTCATCA
















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|110933692|gb|EE153918.1|EE153918
EST:     AAGTTCCTAGAAGATGGAGATGGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: AAGTTCCTAGAAGATGGAGAT-GAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|89764160|gb|DY691068.1|DY691068
EST:     CAAGTTCCTAGAAGATGGAGATGAAGTCATCTAGAGCAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: CAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGA-CAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|211273149|gb|FL031472.1|FL031472
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|33096207|gb|CF056201.1|CF056201
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|113704214|gb|EE681718.1|EE681718
EST:     TGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: TGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|116829718|gb|EC871187.1|EC871187
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAT                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|211273147|gb|FL031470.1|FL031470
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|211274945|gb|FL031473.1|FL031473
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|76908479|gb|DV162961.1|DV162961
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|76294227|gb|DV033795.1|DV033795
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAG                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
EST: gi|116829759|gb|EC871644.1|EC871644
EST:     GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAT                         GGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG
genomic: GCAAGTTCCTAGAAGATGGAGATGAAGTCATCTTGACAGGATGTTGCAAGgtactgtgag ... ggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctctacagtgacgctaggctgtattttgattccaccatccgctggttcttcagGGTGAAGGCTACAACATTGGTTTTGGAACCTGCACCGGGAAGGTTCTGCCGGCACTTCCCTGAGCCAACACGTCTTGGCATCAGTTCTCCGGAGTCTCAA
                         ttttgat  putative branch site (score: 4)
                                               ttcttc  putative PPT
                       tattttgatt  TA-rich tract