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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaactgcattttcttttaatctttcctactgtatttctgttttgtactaagtgataaactttgctattttgatactttcccttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG

Basic information

species Glycine max
transcript GLYMA19G34430.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G34430.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G159295_T02 (Zea mays), 3'ss of exon 7
---------------------------------------------------------------------gtatgaactgcattttcttttaatctttcctactgtatttctg--ttttgtactaagtgataaactt-tgctattttgatactttcccttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
                                                                      | |  ||     | | ||||||  | |  |  ||||        ||| |   | ||   |    |   | | | ||  |   |  |    ||||||||| |||| || ||||||||||| |||||||||||||| || |||
gtaagttggcacagctgattttaagttttacagcatcacaataaactagcaaagcctgcccttatgttgctgttcacatgggtattttttaaattctaatgttgtaagagaaattttagggtttagctctgtgttgacgttgtatttgtttgtgacaccttttcagTTGAGAGAGTACATCGATGACACGGAAGATTACATCAATATCCAG

upper sequence: GLYMA19G34430.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S76_98V6.2 (Physcomitrella patens), 3'ss of exon 8
---------------------------------------gtatgaactgcattttcttttaatctttcctactgtatttctgttttgtactaagtgataaactttgcta--ttttgatactttcccttatt----tcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
                                        |    |||||  |||   ||  | | |  |  | | |  || |||  |  | |      | ||||   |  |  | | | ||| | || ||    |||| | |||||||| || ||||| ||||| ||||||||||||||||||
gtaagtatcctatcttctatcaggatcgatggtcatccgatccttactgctattttggtttctttgtgttgatttctcgctatttgatttttatcttctagctttttaaaatactcacattttgcattcttctcgtcagCTTCGAGAATACATTGATGATACAGAGGATTACATCAACATACAG
















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|120495085|gb|EH223252.1|EH223252
EST:     GCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACA                         TTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
genomic: GCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACAgtatgaactg ... cttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
EST: gi|22926930|gb|BU544069.1|BU544069
EST:     GCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACA                         TTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
genomic: GCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACAgtatgaactg ... cttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttttgtactaagtgataaactttgctattttgatactttcccttatttcagTTGCGAGAATATATCGATGACACAGAAGATTACATCAACATACAG
                               ttttgat  putative branch site (score: 4)
                                     tactttcccttatttc  CT-rich tract
                             tattttgatacttt  TA-rich tract