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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttcttacttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG

Basic information

species Physcomitrella patens
transcript PP1S14_433V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os07g07709.1 (Oryza sativa), 3'ss of exon 2
tgctagagtttagggtttctggcgtctacttctctctaagtggtaat--cgcccgggtccaaagaattcgcttttcttacttgagtatgcaa----------tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
              |  | ||    | |    |      ||| | ||   |  |    |||||| | |    | |      |||| | || |          | |  |  || || ||||| ||  |  | |  |||||||||  | | |||    | || || || ||||||||||||||| |||| || |||||||||||||| ||||||
------------atgactttgtaaccaaaacataagatggtgatgattttgtgcaaaaccaaaggacttttatgttactagtgagaaagctaacaattatttttctctgtagGGCTGGTGAACTCACTCCTGAGGAGCTTGAGCGCCTCATGACTGTGGTGGCAAACCCTCGCCAGTTCAAGGTCCCTGACTGGTTTCTGAACAGGAAGAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os07g07719.1 (Oryza sativa), 3'ss of exon 1
tgctagagtttagggtttctggcgtctacttctctctaagtggtaat--cgcccgggtccaaagaattcgcttttcttacttgagtatgcaa----------tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
              |  | ||    | |    |      ||| | ||   |  |    |||||| | |    |||      |||| | || |          | |  |  || || ||||| ||  |  | |  |||||||||  | | |||    | || || || ||||||||||||||| |||| || |||||||||||||| ||||||
------------atgactttgtaaccaaaacataagatggtgatgattttgtgcaaaaccaaaggacttttattttactagtgagaaagctaacaattatgtttctctgtagGGCTGGTGAACTCACTCCTGAGGAGCTTGAGCGCCTCATGACTGTGGTGGCAAACCCTCGCCAGTTCAAGGTCCCTGACTGGTTTCTGAACAGGAAGAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G36610.3 (Glycine max), 3'ss of exon 2
tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccg--ggtccaaagaattc-gcttttcttacttgagtatgcaatcccatt---cagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
                   ||   | |  |  |   | |||   ||| || ||    | |  | | ||  |   || ||  |  | |  | | |    ||   ||| || |||||| || | || |||||| | || |   |||||    | || || || ||| | ||||||||||||||||| |||||| ||||||||||||||
------------------gtgcttttttttattggttgagtt-caattgctcgttaattcgcacatttttgtggttattgttgaaattgggatttttgtttgtcagGGCTGGTGAGTTGACTGCTGCTGAGTTGGATAGTGTGATGACTGTGGTGGCGAACCCTAGGCAGTTCAAGATCCCAGACTGGTTTTTGAACAGAAAGAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA10G36880.2 (Glycine max), 3'ss of exon 2
tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccg--ggtccaaagaattc-gcttttcttacttgagtatgcaatcccatt---cagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
                   ||   | |  |  |   | |||   ||| || ||    | |  | | ||  |   || ||  |  | |  | | |    ||   ||| || |||||| || | || |||||| | || |   |||||    | || || || ||| | ||||||||||||||| | |||||| ||||||||||||||
------------------gtgcttttttttattggttgagtt-caattgctcgttaattcgcacatttttgtggttattgttgaaattgggatttttgtttgtcagGGCTGGTGAGTTGACTGCTGCTGAGTTGGACAGTGTGATGACTGTGGTGGCGAACCCTAGGCAGTTCAAGATCCCAAACTGGTTTTTGAACAGAAAGAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA02G08690.1 (Glycine max), 3'ss of exon 2
--tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaat-tcgcttttcttacttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
  |  | |  |||    ||      || |  || ||| ||| |  | |      |  |  |  |  | ||| ||||  |  |   | ||          ||||||| |||||  ||   ||   |||| | || | | | |||    | |||||||| ||||| || ||||||||||| ||||||||| |||| || ||||| 
atttattggtttttttattgaaattgttt-tttttctttaatt--tcactctttgattgaattgggtctcgattttgattttgatgaatttcggttgtctcagAGCTGGTGAATTGAGTGCTATTGAGTTGGATAGCGTTATGACTGTGGTTGCCAACCCTCGGCAATTCAAGATCCCGGATTGGTTTTTGAATAGGAAGAAA

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT1G22780.1 (Arabidopsis thaliana), 3'ss of exon 2
------tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttcttacttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
      |  | |    |||   ||||   |  |  |  |||  |||  ||  | |  |  ||        ||   | || || | |  |   | |     |||||| || || || ||    || |||||| |||| ||| | |||   |||||||| || ||||||||||||||||||||||| |||||||| |||||| | |||
aggttttctttgcacatagaacttctctagattgatattcttgaagaagt--ttggtctagtgtgtgtttttaaatgttttttcctttgctggta----tattcagGGCTGGAGAACTAAGTGCTGCTGAGATTGATAACCTCATGACAATCGTTGCTAACCCTCGCCAGTTCAAGATCCCAGACTGGTTTCTTAACAGACAAAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv05s0020g03450.t01 (Vitis vinifera), 3'ss of exon 2
-tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttcttac-ttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
 |     |||  | || || |||  ||||||| ||| |   |  |  | |      |   ||   || || || || |  ||   ||     |    || ||||| ||||| || || || |||||||| |||||| |||||||||| || || |||||||| ||||| |||||||| || |||||||||||||| ||||| 
gtttggtagtagatggattttggtctctactt-tctattcttattctttgtt-atatttgaatttttggcattactaaaattttctaaatggtttactttagAGCTGGTGAACTATCTGCTGCTGAGCTCGAGAACCTGATGGTGATTGTGGCGAATCCTCGTCAGTTTAAGATCCCTGACTGGTTTCTGAACAGGAAGAAA

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ22352 (Selaginella moellendorffii), 3'ss of exon 2
---------------------------------------------------------------------------------------tgctagag-tttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttcttacttgagtatgcaatc-ccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
                                                                                       | || ||  ||| || ||  | |  |   |||||   |   |  | |         ||        ||  |||||||  ||   |   |   |  |   ||| || ||||||||  | || || ||||| |||||| | ||||||||||||||||| || ||||||||||||||||| || ||||| || ||||| ||||||
gtatgtttgccctttcttttcctcttgctctgctggtgagctgaaagatcttgttttctcgtcattttcttctatggatgactatcttccttgatctttcggattgattgattgagcttcttcattgatt-tgaaaaaaaaaatctgtgcttatcatttttctttgtttctttctcttccatcgaacagGGCTGGTGAGCTCACTGCTGCGGAGCTCGAGAACCTCATGGTGATCGTTGCCAACCCCCGCCAGTTCAAGATCCCCGACTGGTTCCTCAACAGGAAGAAG

upper sequence: PP1S14_433V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ25542 (Selaginella moellendorffii), 3'ss of exon 2
tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttctt-acttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
   |    ||| || ||  | |  |   |||||   |   |  | |         ||        ||  |||||||   ||   | |       |   ||| || ||||||||| | || || ||||| |||||| | ||||||||||||||||| || ||||||||||||||||| || ||||| || ||||| ||||||
ccttgatctttcggattgattgattgagcttcttcattgatt-tgaaaaaaaaaatctgtgcttatcatttttctttgtttctttctcttcgatcgaacagGGCTGGTGAGCTGACTGCTGCGGAGCTCGAGAACCTCATGGTGATCGTTGCCAACCCCCGCCAGTTCAAGATCCCCGACTGGTTCCTCAACAGGAAGAAG

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|162230970|gb|FC407225.1|FC407225
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162232248|gb|FC407772.1|FC407772
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162235758|gb|FC411061.1|FC411061
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162232249|gb|FC407773.1|FC407773
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162202825|gb|FC379807.1|FC379807
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162217729|gb|FC393821.1|FC393821
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|208344587|gb|DC909146.1|DC909146
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|100450815|gb|CJ974453.1|CJ974453
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162221578|gb|FC397595.1|FC397595
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162211535|gb|FC387615.1|FC387615
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|7583669|gb|AW699576.1|AW699576
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162221577|gb|FC397594.1|FC397594
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162223027|gb|FC399645.1|FC399645
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|19790327|gb|BQ041813.1|BQ041813
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162230971|gb|FC407226.1|FC407226
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162243706|gb|FC420696.1|FC420696
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162278921|gb|FC454972.1|FC454972
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|19781079|gb|BQ039654.1|BQ039654
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162267970|gb|FC444051.1|FC444051
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162222018|gb|FC398585.1|FC398585
EST:     GCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: GCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162217806|gb|FC394106.1|FC394106
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162213760|gb|FC390375.1|FC390375
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162278920|gb|FC454971.1|FC454971
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162211536|gb|FC387616.1|FC387616
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162213890|gb|FC390089.1|FC390089
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162217807|gb|FC394107.1|FC394107
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162223518|gb|FC399148.1|FC399148
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162223026|gb|FC399644.1|FC399644
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162223519|gb|FC399149.1|FC399149
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|162214369|gb|FC390088.1|FC390088
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
EST: gi|208378326|gb|DC923011.1|DC923011
EST:     CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAG                         AGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC
genomic: CGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 56

GACGTCAAAAGATTATGTTTGCCTTGACCTCCATTAAGGGAGTTGGACGTCGTTTTGCGAATTTGGTCTGCAAGAAGGCCGATGTTGACATGAGCAAGAGgtgcgtatta ... tcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgcccgggtccaaagaattcgcttttcttacttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG
                          ttcttac  putative branch site (score: 56)
                                             tcccattc  putative PPT
             aaagaatt  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
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tgctagagtttagggtttctggcgtctacttctctctaagtggtaatcgcccgggtccaaagaattcgcttttcttacttgagtatgcaatcccattcagAGCCGGTGAGCTGTCCGCGGCTGAGCTTGAGAACTTGATGGTGATCGTTGCCAATCCTCGCCAGTTCAAGATCCCAGATTGGTTTCTGAACAGAAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG