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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctcttcctttgactttagatattgaatatgctcaacttacacttaaagttattcatgttcacttaacatttatggaattttatgtttgttttctcgtcacttttctcccatccctagaatttgtcgaagttgaataaatgtgtttgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATGACTTTTGAGTACATTGAAAACTACTGCAAGTCCAAAGCGGGCATGACAG

Basic information

species Physcomitrella patens
transcript PP1S37_33V6.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S37_33V6.2 (Physcomitrella patens), 3'ss of exon 18
lower sequence: EFJ25084 (Selaginella moellendorffii), 3'ss of exon 18
gtatgctcttcctttgactttagatattgaatatgctcaacttacacttaaagttattcatgttcacttaacatttatggaattttatgtttgttttctcgtcacttttctcccatccctagaatttgtcgaagttgaataaatgtgtttgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATGACTTTTGAGTACATTGAAAACTACTGCAAGTCCAAAGCGGGCATGACAG
                                                                                                           |       | | |  ||  | || || |||| |   ||| |      | |||||  | |||||||| ||||||||||||||||||||| | || ||||| |||||  | ||||   | || ||||| ||||||    || | |  |   |  
-------------------------------------------------------------------------------------------------------gtactagcattgtgcttccaagctctccaa-ttgactgcttgtatcc----ttcagCTGGTGTGGGATCGCGCACTTGGTCTTCCAATTGAAAGGCCAAAGAGCATGACCATGGAGTGGCTGGAGAACTATTGCAAGAAGCAAACCGTGACAGCGT

upper sequence: PP1S37_33V6.2 (Physcomitrella patens), 3'ss of exon 18
lower sequence: EFJ29959 (Selaginella moellendorffii), 3'ss of exon 18
gtatgctcttcctttgactttagatattgaatatgctcaacttacacttaaagttattcatgttcacttaacatttatggaattttatgtttgttttctcgtcacttttctcccatccctagaatttgtcgaagttgaataaatgtgtttgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATGACTTTTGAGTACATTGAAAACTACTGCAAGTCCAAAGCGGGCATGACAG
                                                                                                           | |     | | |  ||  | || || |||| |   ||| |   |  | |||||  | |||||||| ||||||||||||||||||||| | || ||||| |||||  | | ||   | || ||||| ||||||    || | |  |   |  
-------------------------------------------------------------------------------------------------------gtactaccattgtgcttccaagctctccaa-ttgactgcttgtatcgtaccttcagCTGGTGTGGGATCGCGCACTTGGTCTTCCAATTGAAAGGCCAAAGAGCATGACCATGGGGTGGCTGGAGAACTATTGCAAGAAGCAAACCGTGACAGCGT
















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|162176172|gb|FC351914.1|FC351914
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|15320332|gb|BI488151.1|BI488151
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|162165708|gb|FC340889.1|FC340889
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|208386538|gb|DC952747.1|DC952747
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|67697462|gb|BJ957695.1|BJ957695
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|37823157|gb|BJ581223.1|BJ581223
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|208388659|gb|DC953435.1|DC953435
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|208363044|gb|DC957985.1|DC957985
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|37847922|gb|BJ605930.1|BJ605930
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|37835509|gb|BJ593521.1|BJ593521
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|162152561|gb|FC328839.1|FC328839
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|67724660|gb|BJ974919.1|BJ974919
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|162194037|gb|FC370212.1|FC370212
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|208356950|gb|DC922286.1|DC922286
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTTTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|162234310|gb|FC409848.1|FC409848
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|37825198|gb|BJ583264.1|BJ583264
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
EST: gi|162202112|gb|FC378033.1|FC378033
EST:     ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAG                         CTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG
genomic: ACTACACTGTGCTTTTTGGAGTATCACGTGCCATGGGTGTCCTCTCTCAGgtatgctctt ... tgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttctcccatccctagaatttgtcgaagttgaataaatgtgtttgatgtgcagCTCATCTGGGATCGAGCACTTGGTCTTCCAATTGAACGACCGAAGAGTATGACTTTTGAGTACATTGAAAACTACTGCAAGTCCAAAGCGGGCATGACAG
                                          gtttgat  putative branch site (score: 5)
                              ttgaataaat  TA-rich tract