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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactatagtttcattgtgtattgtatgtgctactttgataagtaagtgatggttcaaaatctctggtctattaaattgttctttcttttgtaacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATTGATAAAAAG

Basic information

species Glycine max
transcript GLYMA08G18810.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------aactatag----tttcattgtgtattgtatgtgctactttgataagtaagtgatggttcaaaatc--tctggtctattaaattgttctttcttt---tgtaac---atgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATTGATAAAAAG
                                                               |  | | |    ||| | || | |||  || |  | || ||     |  |   || |||  | ||  | |  | | |||  || || | | | |   |||||    |||||||| || |||||||| |||||||||||  ||||| |||||||||||||||||||||| |||
gtactagtggccaactttttagctgttttagttatgttaatttctgtattatacttttattacatgtttggcccattttagtgagcattccat-ttttgctctgcccc-tgtggtttgattctcactccgtataattttttattttattttatatatgattgtaatcaaatgcagTCAGAGGATGAGCGGGAAATGTGTGCTAGGACTGTCTATTGTACAAATATTGATAAGAAG

upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 3'ss of exon 5
--aactatagtttcattgtgt--attgtatgtgcta--ctttgataagtaagtgatggttcaaa--atctctggtctattaaattgttctttcttttgtaacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATTGATAAAAAG
  || | |    |  |||     |||||  ||| ||  |  |  |   | | | | || ||  |  |  |||||     ||| ||  |   |||    ||     ||||| || |||||||||||||||||||| ||||| ||||| |||||||||||||| || |||
ggaattgtttcatacttgcaacgattgttagtgatatgccatagttcttgaat-acggctcggatgaattctggct--ctaacttagttactctccatta-----cagTCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAG

upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S196_50V6.1 (Physcomitrella patens), 3'ss of exon 6
aactatagtttcattgtgtattgtatgtgctactttgataagtaagtgatggttcaaaatctctggtctattaaattgttctttc-----ttttgtaacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATTGATAAAAAG
      ||  |  |  |  ||| |  |||      |  || || |   ||  |  ||| |   |     |     |||||||  |     || | ||   | ||||| || || ||||||||||||||||| || || ||||| ||||||||||||||||| |||
-----aagaattttgataaatttttagtgacgtagttgtatgtgaacaatcctggaaattgcttcaataaggtggttgttctaacacaacttctctatgtttcagTCTGAAGACGAGCGTGAAATGTGTGCACGTACCATCTACTGTACAAATATTGATAAGAAG

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|19934604|gb|BQ079634.1|BQ079634
EST:     TTCCTTCAAAAACTGCCATTCTTCCGGTGAATCCTACATTCCTCCCTAGG                         TCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATT
genomic: TTCCTTCAAAAACTGCCATTCTTCCGGTGAATCCTACATTCCTCCCTAGGgtatgaatac ... taacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATT
EST: gi|9204058|gb|BE330282.1|BE330282
EST:     CCTACATTCCTCCCTAGG                         TCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATT
genomic: CCTACATTCCTCCCTAGGgtatgaatac ... taacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatggttcaaaatctctggtctattaaattgttctttcttttgtaacatgcagTCGGATGATGAGCGTGAAATGTGTGCCCGGACTATCTATTGTACAAATATTGATAAAAAG
                                          ttgtaac  putative branch site (score: 2)
                              ttgttctttcttttgt  CT-rich tract
                       tattaaattgttcttt  TA-rich tract