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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatacactgatcaaacttggcgtgaactagatactagttcaacttttctgctttctctcaacttacgtaattgtctttgttctatttcaagtcttttttgcggaattgttttgcgcagttgtttcaccccatgcttcttaattgaaaaactgttataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATGTTCGAAGAGCAGATGTACGCGGCTGGGTCGTTCCATGAAGTACCCCAAT

Basic information

species Physcomitrella patens
transcript PP1S98_84V6.1
intron # 2
splice site 3'
intron type U2

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|162245599|gb|FC424127.1|FC424127
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|37827665|gb|BJ585677.1|BJ585677
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208355263|gb|DC949799.1|DC949799
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|37840903|gb|BJ598911.1|BJ598911
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162229734|gb|FC404018.1|FC404018
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18338873|gb|BJ170899.1|BJ170899
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208382037|gb|DC928481.1|DC928481
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208385375|gb|DC956615.1|DC956615
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|67692483|gb|BJ952716.1|BJ952716
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162233740|gb|FC410006.1|FC410006
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208384366|gb|DC928117.1|DC928117
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162232467|gb|FC408862.1|FC408862
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162245598|gb|FC424126.1|FC424126
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208357901|gb|DC918649.1|DC918649
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18363745|gb|BJ195817.1|BJ195817
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|67694456|gb|BJ954689.1|BJ954689
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18336726|gb|BJ168749.1|BJ168749
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162225033|gb|FC401449.1|FC401449
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162232466|gb|FC408861.1|FC408861
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcgcagttgtttcaccccatgcttcttaattgaaaaactgttataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATGTTCGAAGAGCAGATGTACGCGGCTGGGTCGTTCCATGAAGTACCCCAAT
                          tcttaat  putative branch site (score: 3)
                            ttaattgaaaaactgt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatacactgatcaaacttggcgtgaactagatactagttcaacttttctgctttctctcaacttacgtaattgtctttgttctatttcaagtcttttttgcggaattgttttgcgcagttgtttcaccccatgcttcttaattgaaaaactgttataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATGTTCGAAGAGCAGATGTACGCGGCTGGGTCGTTCCATGAAGTACCCCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG