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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaagattttaattaatagatagccgtacaccactgatttgccagccttgctaataattgtcataccttatctgaatttttattttatgacctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA

Basic information

species Zea mays
transcript GRMZM2G152757_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g08280.1 (Oryza sativa), 3'ss of exon 4
tcaagattttaattaatagatagccgtacaccactgatttgccagccttgctaataattgtcataccttatctgaatt----tttattttatgacctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA
   | |    |  ||| ||  | ||   ||  | |  |   |  |   ||   |||  |   |   || | |  ||||    ||| |||||  || | | |||||||||| ||||| ||||||||||| |||||  |||||||||||||||| |||||||||||||||||||||||||||||||| || ||| | |||  ||||
---aaaagccatgtaaaaggcatcctgtcaa-attagtactcttgtgatgtgcatatctcaaacttctgacccaaattcacattttttttacaacgttactcagTTTCTTAAGGGGAGACCAATATGCTATTGCCCTGGCTCTGCTTGATGAGGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCCAACCTTTCTTTGGGATCA

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G09180.1 (Glycine max), 3'ss of exon 4
------tcaagattttaattaatagatagccgtacaccactgatttgccagccttgctaataattgtcataccttatctgaatttttattttatgacctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA
      || | ||| || ||  |   |  |  | ||    |  | ||| | | |||   ||   ||||||    || || | |  || |   ||||| | |   || ||  | || || || |||||||| || || || ||| | || |||||||| |||||||| |||||||| |||||||||||||| |||||| || |||| 
ttacagtctatattatactttttgtttcact-tgcatggttactgtgctatcattgtgtatg--tgtcattgagtagctca-tggttgtgagatgacatta--tagGTTTGTAAGAGGAGATCAATATGCTATAGCGTTAGCTTTACTAGATGAAGGCAAAGTTGTATTGGGTGTCTTGGCTTGTCCAAACCTTCCACTGGCATCC

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G26250.1 (Glycine max), 3'ss of exon 4
tcaagattttaattaatag-atagccgt-acaccactgatttgccagccttgctaataattgtcataccttatctgaatttttatt-ttatgacctga-atca--gTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA
      ||  | |  |||| ||||   |     ||||    ||    || |||||  | ||   ||   | ||        | ||  || |||   || || |  | ||  | || || || |||||||| || ||||| ||| || |  ||||||| ||| |||| |||||||| ||||||||||||||||||||| || |||| 
------ttacagtctatagtatagtttttgtttcacttgcatggtcaccgtgctatcattttgtatgtgtcattgagtagctcatggttgtgagaggacattatagGTTTGTAAGAGGAGATCAATATGCTATAGCATTAGCTTTGTTACATGAAGGCAAAATTGTATTGGGTGTCTTGGCTTGTCCAAATCTTCCACTGGCATCC

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv04s0044g01480.t01 (Vitis vinifera), 3'ss of exon 4
--tcaagattttaattaatagatagccgtacaccactgatttgccagccttgctaataattgtcataccttatctgaatttttattttatgacctgaat-cagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA
  | |   |||| |  | ||  |    |      | ||||||      ||| | |         ||   | |  |   || |  || |  |   | |||  |||||  | || || ||||| ||||| || ||||| || ||||| |||||||| ||||| || ||||||||  | ||||||||||||||||| ||| |||| 
tttgagtcttttgaccactaattgagtgctttatattgattttaagtacttaccagc--ccacaatga-tgaaatagcttgtgtttgtgagtttttaatgtagTTTTCTAAGAGGAGACCAGTATGCAATAGCATTAGCACTGCTAGATGAAGGAAAAGTGGTGTTGGGTGTCCTCGCTTGTCCAAATCTTCCCTTGGCATCC

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|15208795|gb|BI430679.1|BI430679
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATT
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATT
EST: gi|211084814|gb|FL392700.1|FL392700
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|13316247|gb|BG410694.1|BG410694
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|211027069|gb|FL381517.1|FL381517
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|211140497|gb|FL400397.1|FL400397
EST:     GGTCCATCTGGACGACATTGGGTGCTTAATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|211426998|gb|FL426768.1|FL426768
EST:     GGTCCATCTGGACGACATTGGGTGCTTAATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|71435796|gb|DR816846.1|DR816846
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|67013898|gb|CO442647.1|CO442647
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|32841437|gb|CD981118.1|CD981118
EST:     GGTACT-AAGG                         TTTCTTGAGGGGCGACCAATATGCCA-TGCCATTGGCTCTGCTTGATGAAG
genomic: GGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTG-CATTGGCTCTGCTTGATGAAG
EST: gi|211225357|gb|FL370946.1|FL370946
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAANG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|50326445|gb|CO521571.1|CO521571
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|32842117|gb|CD981798.1|CD981798
EST:     GGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|149037768|gb|EE155430.2|EE155430
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|93012264|gb|EB637784.1|EB637784
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|211131362|gb|FL428332.1|FL428332
EST:     GGTCCATCTGGACGACATTGGGTGCTTAATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|13316248|gb|BG410695.1|BG410695
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|76016036|gb|DT943206.1|DT943206
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG
EST: gi|211217102|gb|FL383485.1|FL383485
EST:     GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGG                         TTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAANG
genomic: GGTCCATCTGGACGACATTGGGTGCTTGATCCGATTGACGGTACTAAAGGgtgagtttgg ... cctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgctaataattgtcataccttatctgaatttttattttatgacctgaatcagTTTCTTGAGGGGCGACCAATATGCCATTGCATTGGCTCTGCTTGATGAAGGTAAAGTTGTTTTGGGTGTATTGGCTTGTCCAAATCTTCCATTGTCATCA
   tgctaat  putative branch site (score: 2)
                      ttatctgaatttttat  TA-rich tract