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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattggcctgcaattcagtttacttgacaggactagcactgcttctaacatttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT

Basic information

species Zea mays
transcript GRMZM2G078576_T03
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os01g56630.2 (Oryza sativa), 3'ss of exon 13
gtatgtattggcctgcaattcagtttact----------tgacaggactagcactgcttctaacatttttgt--acagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
||||||  || |  ||||||   ||||||          |     || ||  ||||||||||| || | | |  |||||| || |||||| | ||||||||||||||||| ||| ||||||| ||||| ||||| || || |||||| |||||||||| || ||||| 
gtatgtgctgactagcaattatatttactctgtacctcatagggagaatactactgcttctaatatgtgtatcaacagGTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACA

upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 12
--------------------------------------------------gtatgtattggcctgcaattcagtttac-----ttgacaggactagcactg-cttctaacatttttgta-cagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
                                                  || || | |     | |||| |  |||      ||  ||    |   ||||  ||||    |   ||   ||||| || |||||  || ||||  | || || || ||| ||||||| || |||||||||||||| ||||||||| |||| ||||| || |||
gtaaacgattttgattgattgagaagatttatcatgtctatttttatctagtttgcagtaata-gaaatttacattataaccttttgcatctatcttactgatttcttgtgtgactggggcagGTAGTGTATGCAATAATGCACAGGCAGGAAGTCTTTCAGCCATTCAAGAATCATCCACGTTTCAATGAACTGATTGATAACATTTATACT

upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 13
--------------------------------------------------gtatgtattg---gcctgcaattcagttta----cttgacaggactagcactgcttctaacatt--tttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
                                                   ||||| |        | ||| ||   |||    |||  || |  |   |    | || ||  |  ||||  ||||||||||||||  || ||||  |||| ||||| ||| |||| || || ||||||||||| || ||||| |||||||| || || ||||||
gtatcatcatttgtttgtgtggcaactaatacattatagacttgtatctgttatgtctcacaaatatacaaatcttattagcaccttttcatgctttataaaattactcactgtattttgggcagGTTGTATATGCAATAATGCACAGACAGGAGGTCTTTCAGCCTTTCAAGAATCATCCACGATTCAATGAGCTGCTTGAAAATATCTACACT

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|26558732|gb|CA830967.1|CA830967
EST:     TCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST: gi|87155515|gb|DY400304.1|DY400304
EST:     TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST: gi|78111274|gb|DV529671.1|DV529671
EST:     AATCCTTACATATGCATTGCCCAGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: AATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST: gi|32793737|gb|CD945973.1|CD945973
EST:     TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTA
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTA
EST: gi|22472877|gb|BU037357.1|BU037357
EST:     AGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: AGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST: gi|93282383|gb|EB674647.1|EB674647
EST:     TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG                         GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgcaattcagtttacttgacaggactagcactgcttctaacatttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
                                    ttctaac  putative branch site (score: 1)
                                          cattttt  CT-rich tract
                                       taacattttt  TA-rich tract