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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttaatgagtatatagacatgcagtcacatatttttagttaaatgattggacatcttatactgcttactctaactctagacatgattcatattcataatttactcaaccatttgtgtgcaacaactttggctgttagataacatatacatatggatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATACTATGGAAAGAGTTCTCCTTTTAACAGTTTGACAACAGAAAATCTACAGT

Basic information

species Zea mays
transcript GRMZM2G031572_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031572_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g36760.1 (Oryza sativa), 3'ss of exon 2
gtaagtttaat-gagtatatagacatgcagtcacatatttttagttaaatgattggacatcttatactgcttactctaactctagac-atgattcatattcataatt-tactcaaccatttgtgtgcaacaactttggctgttagataacatatacat-atggatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATACTATGGAAAGAGTTCTCCTTTTAACAGTTTGACAACAGAAAATCTACAGT
|| ||| |  |  |||||||||   | ||||      ||   | |  |   ||| |||||  | |  | |  | ||||  | |   | ||  || |     ||  || || |  ||      |||      |   |     |  |||    | |   | |||  ||   |||||| |||||||||| |||||||| ||| |||| || ||||||||||| ||||| ||||||||||| |||||| | ||||||||||| |||||||||  ||
gtgagtatgctcaagtatatagttgtacagt------ttccaactggagcaattagacattatttgttacacattctaggtgtgatctatactttaagcatatggttatattttacttcacctgttttgataacatacacatgggatggtttgtgtgtgatgtgtg---tagGTGATGGCAAAGAAGTTTGGTGCGGCAGTGGTCTCCCCTGAGCATCGGTACTACGGAAAGAGTTCCCCTTTTGAGAGTTTGACAACGGAAAATCTAAGGT

upper sequence: GRMZM2G031572_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G24270.1 (Glycine max), 3'ss of exon 3
gtaagtttaatgagtatatagacatgcagtcacatatttttagttaaatgattggacatcttatactgcttactctaactctagacatgattcatattcataatttactcaaccatttgtgtgcaacaactttggctgttagataacatatacatatggatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATACTATGGAAAGAGTTCTCCTTTTAACAGTTTGACAACAGAAAATCTACAGT
                                                    |  | |   | | ||      ||| | |   ||  ||  || | |  | ||       |   | |  | |  |  || ||   |  |  | ||   |||              |||||  |||||||||| ||||| || ||  ||||| ||| ||| ||||| ||||||||||||||||| || |||||   ||||   ||||||||| |  | |
----------------------------------------------------taaagagtgt-tgctagcatttctcaataatgatgtggctcttgtcaagaaa------agataataatataaactaattt---ccatgcgttattttattttctcta------tagGTACTGGCAAAGAAGTTTGGAGCAGCTATGGTTACTCTTGAACATCGCTACTATGGAAAGAGTTCCCCATTTAATTCTTTGGAGACAGAAAATTTGAAAT

upper sequence: GRMZM2G031572_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0023g03020.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttaatgagtatatagacatgcagtcacatatttttagttaaatgattggacatcttatactgcttactctaactctagacatgattcatattcataatttactcaaccatttgtgtgcaacaactttggctgttagataacatatacatatggatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATACTATGGAAAGAGTTCTCCTTTTAACAGTTTGACAACAGAAAATCTACAGT
                                                    |  | |   || | | | | |||  | | |||     |     | |  | | ||    ||| |  |   || || || | ||    ||   |||  |       ||||  | ||      |||||||||||||||| || ||  ||||||||| ||||||||| ||||||||||||||||| || |||     | ||| ||||||||||||  | |
---------------------------------------------------ctcaaaa--ctaaaatccatcctcagattgtaggagcaaggaggagtt-ttacttgtataacaaacttgctgaaaaaattctgaaccttg--taatgt-------tggacagGTTT-----TGGCAAAGAAATTTGGAGCAGCTGTGGTTTCTCTTGAGCATCGCTACTATGGAAAGAGTTCCCCCTTTCGGTCTCTGAGAACAGAAAATCTGAAAT

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|71441298|gb|DR822348.1|DR822348
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
EST: gi|31357650|gb|CD442007.1|CD442007
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
EST: gi|93011649|gb|EB637169.1|EB637169
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCCCCGATAC
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
EST: gi|211493121|gb|FL031303.1|FL031303
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
EST: gi|211493120|gb|FL031302.1|FL031302
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATAC
EST: gi|211469990|gb|FL213489.1|FL213489
EST:     ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCT                         GTGGTGGCAAAGAAATTTGGTGCTGCAATTGGTTTCTCCTGAGCATCGATA
genomic: ACATCTGTGGAGAATCTACGTGCAATGGGATTGGCAATAACTACTTAGCTgtaagtttaa ... gatggattagGTGGTGGCAAAGAAATTTGGTGCTGCA-TTGGTTTCTCCTGAGCATCGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttgtgtgcaacaactttggctgttagataacatatacatatggatggattagGTGGTGGCAAAGAAATTTGGTGCTGCATTGGTTTCTCCTGAGCATCGATACTATGGAAAGAGTTCTCCTTTTAACAGTTTGACAACAGAAAATCTACAGT
                           agataac  putative branch site (score: 3)
                             ataacatatacatat  TA-rich tract