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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctcaatgtcatggtaattattgtagtatcaagtcaggtttagcatagaaacataacctttctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGATAGCAACTGACACTAATTACAGATTTGACCTGGCTGTGCAACTTGGTCGA

Basic information

species Zea mays
transcript GRMZM2G141587_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 17
gtgctcaatgtcatggtaattattgtagtat-caagtcaggt-ttagcatagaaacataacctttctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGATAGCAACTGACACTAATTACAGATTTGACCTGGCTGTGCAACTTGGTCGA
|||| |  |||  || ||||||||||| | | ||| |||||  | || ||   || |||||| || | ||||||||||||| |||||||||||||||||||| |||||||| |||||||| ||||||||||| ||| ||||||||||||||||| |||| ||||| |||||||| 
gtgccccctgttctgctaattattgtactctgcaactcaggcctcagaatctgaagataacccttttatttgcagTGTGGCACGTTTCTTGGAATCACGGGGCATGTTGGAAGAAGCCCTTGAGATAGCAACAGACTCTAATTACAGATTTGACTTGGCCGTGCAGCTTGGTCGG

upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 3'ss of exon 8
gtgctcaatgtcatggtaattattgtagtat-caagtcaggt-ttagcatagaaacataacctttctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGATAGCAACTGACACTAATTACAGATTTGACCTGGCTGTGCAACTTGGTCGA
|||| |  |||  || ||||||||||| | | ||| |||||  | || ||   || |||||| || | ||| ||||||||| |||||||||||||||| ||| |||||||| |||||||| ||||||||||| ||| ||||||||||||||||| |||| ||||| |||||||| 
gtgccccctgttctgctaattattgtactctgcaactcaggcctcagaatctgaagataacccttttattttcagTGTGGCACGTTTCTTGGAATCACAGGGCATGTTGGAAGAAGCCCTTGAGATAGCAACAGACTCTAATTACAGATTTGACTTGGCCGTGCAGCTTGGTCGG

upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 17
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 17
--------------------gtgctcaatgtcatggt-aattattgtagtatcaagtcaggtt-tagcat----agaaacataacctttctttttgc-agTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGATAGCAACTGACACTAATTACAGATTTGACCTGGCTGTGCAACTTGGTCGA
                    |      |    | | | ||||||| |    ||   | || || | ||||    | ||  | |    ||    |||| |||||||| |||||||||||||||||||| ||| | ||||| ||||| ||  |||| |||||| || ||||| ||||||| || ||  |||| |||||  ||
tctgaacttttatacccgctgaaaatgaaacaaagatgaattattttgcagtcttttaagtttcttgcatgctaataagaaaagttgtttgaattgctagTGTGGCTCGTTTCTTGGAATCACGGGGTATGATAGAGGATGCCCTGGAAGTAGCTACTGACCCTGATTACCGATTTGAGCTAGCAATGCAGCTTGGCAGA

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|18384334|gb|BM417533.1|BM417533
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|18384433|gb|BM417632.1|BM417632
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|211291668|gb|FL235608.1|FL235608
EST:     GATCGTGCAAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCACGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|22489660|gb|BU049570.1|BU049570
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|21809537|gb|BQ667855.1|BQ667855
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|18649807|gb|BM498626.1|BM498626
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|18649903|gb|BM498722.1|BM498722
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|89106141|gb|DY576358.1|DY576358
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|18963894|gb|BM660690.1|BM660690
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
EST: gi|18649808|gb|BM498627.1|BM498627
EST:     GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGACCAATATGACAG                         TGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT
genomic: GATCGCGCGAATGATGTTTTATCATCTATACCAAAGGAACAATATGACAGgtgctcaatg ... ctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattgtagtatcaagtcaggtttagcatagaaacataacctttctttttgcagTGTGGCGCGTTTCTTGGAATCACGGGGAATGTTGGAGGAAGCCCTCGAGATAGCAACTGACACTAATTACAGATTTGACCTGGCTGTGCAACTTGGTCGA
                                  acataac  putative branch site (score: 3)
                                        cctttctttttgc  CT-rich tract
                                          tttcttttt  TA-rich tract