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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataattttttagttaaaactatcttgcattgtcttttattattatattatattcatctacatgggctgaaaatatattgtatctcaaatattaaaatgctttctttgttattcttttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG

Basic information

species Glycine max
transcript GLYMA02G01510.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G121456_T03 (Zea mays), 3'ss of exon 5
gtaataattttttagttaaaactatcttgcattgtcttttattattatattatattcatcta-catgggctgaaaatatattgtatctcaaatattaa-aatgctttctttgttattcttttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG
                                               || ||   ||||||| ||| |  ||      |    |   |||| || ||  ||||| ||        ||| ||| |  ||||||||||| |||||||||||||||| ||||||| | |||||||| || ||||||||| ||||| |||| || ||
----------------------------------------------gtaata-gctcatctaacatagtatgtctgcgttagctgcttcaattaatactaatgcatt--------ttcgttttctgttagGAATGGCTATATTTGATACAATGAAGCATATCAGGCCTGATGTATCCACTGTTTGTATTGGACTAGCTGCAAG

upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaataattttttagttaaaactatcttgcattgtcttttattattatattatattcatctacatgggctgaaaatatattgtatctcaaatattaaaatgctttctttgttattcttttcccct---tagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG
                                                 | |||  || ||   |  ||| |   | |||  | | ||   | |||   |   |   | ||   ||| || |  |    ||| ||||| ||||| ||||| |||||||| ||||| ||||||||||| ||||||||||||||  |||| |||||
------------------------------------------------gtaataa-caactttgtcagcttactctttatcttttttccggttttatggttaatgactcgtgcatctcttactttacccagGCATGGCTATATTCGATACTATGAGGCACATCCGGCCTGATGTGTCCACTGTTTGTGTTGGTCTAGCTGCTAG

upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 5
gtaataattttttagttaaaactatcttgcattgtcttttattattatattatattcatctacatgggc-tgaaaa--tatattgtatctcaaatattaaaatgctttctttgttattcttttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG
    |||||| |   ||| ||  |      ||| |  || |   |  || ||  || || ||  || || || | |  | ||  |  ||| |  |  |  ||| ||| |||  ||||      ||||| ||| ||||| ||||| || |||||||||||||||||||||||||| || ||||| ||||||||| |||| || ||
---gtaatttctgtcttacaataa------atttttcttcacactggtacta-gtttatttaactgagcatggagacttgtacaggttcttattttcttgaattcttccttatttat------cccctcagGCATGGCTATATTCGACACAATGAGGCATATCCGACCTGATGTTTCCACTGTGTGTGTTGGACTAGCAGCCAG

upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S49_191V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaataattttttagttaaaactatcttgcattgtcttttattattatattatattcatctacatgggctgaaaatatattgtatctcaaatattaaaatgctttctttgttattcttttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG
                         |    |||||   || |  | | || |  ||| |||        | |   | |||  | |         | ||| | ||| | | | ||| |         |||||||||||| || || || ||||||||||| ||||||||||||   || || ||||||||  | || || ||
--------------------gtggacggtaattgtgagtt-tggtaacatgaagttcgtctggggttctttaggttttatcttgtagtttcctcttaaa-gttttgtgtatgattttga------cagGAATGGCAATCTTCGACACCATGAGGCATATTCGACCTGATGTGAGCACAGTCTGTGTTGGGCTTGCAGCCAG

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|193464771|gb|FK430095.1|FK430095
EST:     ATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG                         GAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTG
genomic: ATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTGgtaataattt ... ttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTG
EST: gi|15204414|gb|BI427182.1|BI427182
EST:     GATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG                         GAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTG
genomic: GATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTGgtaataattt ... ttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatattgtatctcaaatattaaaatgctttctttgttattcttttccccttagGAATGGCAATATTTGATACAATGAGGCATATCCGACCTGATGTGTCTACTGTTTGTGTTGGATTAGCGGCTAG
                          tgctttctttgttatt  CT-rich tract
               aaatattaaaatgctt  TA-rich tract