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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaacttgttcgctggttttgaatgttcggttgttggtgctatgaatagtacatgtaacttgtgaaggttacttcgcgagatgactaggaatcacgttggaatcatcctatctaatgttttttttccaaatatgatcggtgcagTATGCTCGAATCATTCAAAAGCTTGGTTTTCCAGCCCAATTCAAG

Basic information

species Physcomitrella patens
transcript PP1S13_321V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA09G41330.1 (Glycine max), 3'ss of exon 5
gtgtgaacttgttcgctggttttgaatgttcggttgttggtgctatgaatagtacatgtaacttgtg-aaggttacttcgcg-agatgactaggaatcacgttggaatcatcctatctaatgttttttttccaaatatgatcggtgcagTATGCTCGAATCATTCAAAAGCTTGGTTTTCCAGCCCAATTCAAG
                                   || | || | | | |  |   |  |  | ||  |||  |  ||| |  |  | | | | ||     | | |      || | || |  ||||| ||         ||  | ||||||||| |||| ||||||||||||||||| |||||  |||| |||
----------------------------------ggtggatgattttattgttctcttcacttagtataagcatgattcacacattttattcgaaaatttatagca------ctttttacttgtttttctc---------tcttttcagTATGCTAGAATTATTCAAAAGCTTGGTTTCCCAGCTAAATTTAAG

upper sequence: PP1S13_321V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 5
---------gtgtg-aacttgttcgctggttttgaatgttcggttgttggtgctatgaatagtacatgtaac---ttgtgaaggttacttcgcgagatgactagg-aatcacgttggaa-------tcatcctatc----taatgttttttt-----tccaaatatgatcggtg--------cagTATGCTCGAATCATTCAAAAGCTTGGTTTTCCAGCCCAATTCAAG
         |  |  |   ||||   |  | || || |||       |  |  |||  ||   |  |  |||   |||| |  || | ||   |  ||  | ||| ||| | ||    |       ||||| ||||     ||||| ||| |     | ||  | |  |   ||        |||||||||||||| ||||| ||||| |||||||||||  |||| |||
gtatttgatgcattcagtgtgtttagttatcttaaaagttgtaggtgtaattttatctatcaaatttaaaacaagttgtaagtgtaatttactggaatagcaaggcaatgatgtaaataagttccatcatcttatcacaacaatgtatttctaatcttacatgttttttttttgtttttttccagTATGCTCGAATTATTCAGAAGCTCGGTTTTCCAGCTAAATTTAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcacgttggaatcatcctatctaatgttttttttccaaatatgatcggtgcagTATGCTCGAATCATTCAAAAGCTTGGTTTTCCAGCCCAATTCAAG
                    atctaat  putative branch site (score: 3)
                       taatgttttttttcca  TA-rich tract