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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcattttttaacaatgtagtatgctatcttttttttgaaactacaacatgcaatgtttatgatgaaaagttgtacatggctgcactgacagtttcatgtgaaacattgtagattggacattggtgtgcactatttctttgagttcactggtgcatacaatgtgttgacagaattctgtgtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAGGGGAAGCTAACAGTGAGTTGCTAGAATTTATGGGCAAGGTGATTTTCTT

Basic information

species Zea mays
transcript GRMZM2G099547_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099547_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g19470.1 (Oryza sativa), 3'ss of exon 4
gtatgcattttttaacaatgtagtatgctatcttttttttgaaactacaacatgcaatgtttatgatgaaaagttgtacatggctgcactgacagtttcatgtgaaacattgta-gattggacattggtgtgcactatttctttgagttcactggtgca-tacaatgtgttgacagaattctgtgtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAGGGGAAGCTAACAGTGAGTTGCTAGAATTTATGGGCAAGGTGATTTTCTT
|||||   | || | | |  | | | |   || |  ||   ||| ||| || ||| | ||||||||| || | |  || ||    ||  ||| |||||      | ||| || |  |||  |  ||    |||    |||||||   |||||| |  ||  ||| | || ||||| || | | | |  ||| |||||||||||||||||| ||||||||||| || ||||| | |||||||||||||||||| ||||  ||  | ||||| || |||||||||           
gtatgttgtgttgatctaactggaaggaagtcatactt---aaaatactacttgctaagtttatgataaataatgctagataa--gccttgaaagtttt---caacacactggacaattcaatgttaaattgct---tttcttt---ttcacttgcccaacacattctggtgacaaaactgtatttactttaagGAGTGAATGCTGATGATGTTCGAGTAACAGTTGCTGCTCCTGCTGCTCGAGGGGAAGCAAACAACGAACTACTAGAGTTCATGGGCAAG-----------

upper sequence: GRMZM2G099547_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g01530.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcattttttaacaatgtagtatgctatcttttttttgaaactacaacatgcaatgtttatgatgaaaagttgtacatggctgcactgacagtttcatgtgaaacattgtagattggacattggtgtgcactatttctttgagttcactggtgcatacaatgtgttgacagaattctgtgtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAGGGGAAGCTAACAGTGAGTTGCTAGAATTTATGGGCAAGGTGATTTTCTT
                                                                                |   |   |   || | |  ||| | | ||| ||     ||  ||       |  |||  ||    || |||  |    || |||  ||  ||   || | |    |  |||| |||||||| ||||| |||||||| || |||||||| | ||| || || ||||||||||||| |||  |  | ||||| ||||||||            
--------------------------------------------------------------------------------tatttctccgatcattcttctgtaatagatttta----agattttcccaaaaaacattagttc---ttgact--tatgaaccatgcctttgca---ttttatcatataccagGGGTGAATGCAGATGATGTTCGAGTGACTGTAGCTGCGCCTGCAGCCCGTGGGGAAGCTAACAATGAACTTTTGGAATTCATGGGCAAA-----------
















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|78180203|gb|DV550576.1|DV550576
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAGTAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|149104413|gb|EE289858.2|EE289858
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|71433975|gb|DR815025.1|DR815025
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|71450211|gb|DR831261.1|DR831261
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|50325142|gb|CO520268.1|CO520268
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|60337078|gb|DN204051.1|DN204051
EST:     CCAAGTAGCCATTGAAGTGGAAGACAGGGCACAACGTTCAGCAATAACAA                         GAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAG
EST: gi|19822251|gb|BQ048275.1|BQ048275
EST:     CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAGTAACAA                         GAGTGAATGCTGATGACGTTCGA
genomic: CCAAGTAGCCATTGAAGTGGAAGACCGGGCACAACGTTCAGCAATAACAAgtatgcattt ... gtgttttcagGAGTGAATGCTGATGACGTTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgagttcactggtgcatacaatgtgttgacagaattctgtgtgttttcagGAGTGAATGCTGATGACGTTCGAGTAACGGTAGCTGCCCTTGCTGCTCGAGGGGAAGCTAACAGTGAGTTGCTAGAATTTATGGGCAAGGTGATTTTCTT
                            tgttgac  putative branch site (score: 3)
                                              tgttttc  putative PPT
                    atacaat  TA-rich tract