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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC

Basic information

species Physcomitrella patens
transcript PP1S33_110V6.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os12g42884.1 (Oryza sativa), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatac-taaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC--------
     || | |  |   |    |       | ||   ||     ||     || | |  | |  |   |||| |    |    ||  | | ||||||  ||    || |||||| || ||| | |||||||||||||| |||||||||||||||||||||||||| || || |||||  | |||||||| |||| |   ||        
-----gatatgtgtaatcttgttagctaaatcataattttcgtatgtattcacatgacatttcgatgaatcaaactgatcgtagtacaattgtttctatag----aaagATGGCGTCTCACATTGTTGGATACCCCCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCCCTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCTGAGGATT

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os12g42884.3 (Oryza sativa), 3'ss of exon 1
--tgacggacacgcttgtccagaattttcttgtgatgcat--tgatggtgcggatac---taaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
  |  |  |      |||  |   || |    | |  |||  |  | ||  | || |   | |  | |  |   |||| |    |    ||  | | ||||||  ||    || |||||| || ||| | |||||||||||||| |||||||||||||||||||||||||| || || |||||  | |||||||| |||| |   ||    
gttagcatatggatatgtgtaatcttgttagctaaatcataattttcgtatgtattcacatgacatttcgatgaatcaaactgatcgtagtacaattgtttctatag-

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os12g42884.2 (Oryza sativa), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactca-tcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
  | ||| | |  |   |    |       | ||   ||     ||     ||   ||  ||   | | ||| |    |    ||  | | ||||||  ||    || |||||| || ||| | |||||||||||||| |||||||||||||||||||||||||| || || |||||  | |||||||| |||| |   ||    
-tatggatatgtgtaatcttgttagctaaatcataattttcgtatgtattcacatgacatttcgatgaatcaaactgatcgtagtacaattgtttctatag-

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G149751_T02 (Zea mays), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgt-gatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
    | |    |||   || |   ||||  |  ||  |    ||       |  || | || ||   |||   || |||  ||||   |   ||| ||   |||||| |||||| |||||| | ||||||||||| || |||||||||||||||||||||||||| || || |||||  | |||||||| |||| |   ||    
---agcatgaccttaatcatatcgttctcatcaataaacatctgtattccttgttacaatagttga-catggtatttctgactgtaattctatttatggcacagAAA-GATGGCGTCCCACATTGTTGGATACCCTCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCACTTGAGTCTTTCTGGGATGGGAAGAGCACCGCTGAG

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G149751_T03 (Zea mays), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgt-gatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC--------
           |||   || |   ||||  |  ||  |    ||       |  || | || ||   |||   || |||  ||||   |   ||| ||   |||||| |||||| |||||| | ||||||||||| || |||||||||||||||||||||||||| || || |||||  | |||||||| |||| |   ||        
-------tgaccttaatcatatcgttctcatcaataaacatctgtattccttgttacaatagttga-catggtatttctgactgtaattctatttatggcacagaaa-gATGGCGTCCCACATTGTTGGATACCCTCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCACTTGAGTCTTTCTGGGATGGGAAGAGCACCGCTGAGGATC

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G112149_T02 (Zea mays), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC--------
          |||| |    |  ||| ||| |    ||     |    | | ||  | | | |    |||| |  |  || |  |  ||   |  |  |  ||||| |||||| |||||  | ||||||||||| || |||||||||||||||||||||||||| ||  | |||||  | |||||||| |||| |   ||        
---tcttttagcttatttgcagctttgttgaggcaaatattcagc-tagcttctctatt-tctgtgaatca-acctgatcttaagattttactgttata-tagaaa-gATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAGGATT

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G112149_T01 (Zea mays), 3'ss of exon 1
-tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
  |        |||| |    |  ||| ||| |    ||     |    | | ||  | | | |    |||| |  |  || |  |  ||   |  |  |  ||||| |||||| |||||  | ||||||||||| || |||||||||||||||||||||||||| ||  | |||||  | |||||||| |||| |   ||    
gagctcttttagcttatttgcagctttgttgaggcaaatattcagc-tagcttctctatt-tctgtgaatca-acctgatcttaagattttactgttata-tagAAA-GATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGGGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAG

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G165747_T02 (Zea mays), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
 |   || |    | |    |  ||  |||   |   ||  |||  |  ||| | | |||  | |||     |  |  |  |    |||  | | |     ||||| |||||| |||||  | ||||||||||| || |||||||||||||| ||||||||||| ||  | |||||  | |||||||| |||| |   ||    
-gctagagagagctctttt-agcttatttgcagtttttttttgggacaaatattcagctagcttctctgtcaacctgatttta-acatttttctgttatatagAAA-GATGGCGTCCCATATTGTTGGATACCCTCGCATGGGCCCCAAGAGAGAGCTCAAGTTTGCCTTGGAGTCTTTCTGGGATGGGAAGAGCAGCGCCGAT

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA16G04240.3 (Glycine max), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttc--tgcagCAGAAACGA-TGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC--
 |  | |   | |  | | || | || |||  ||| ||  |||       |  |  |    ||| || |     |      || |  || | |    |||  ||||||  | |||| || ||| | |||||||||||||||||||| |||||||| ||||||||||||||||| |||||  | ||||||||||||| |   ||  
-gttgcatgtgttaatgcgga-tattattgccatg-atctatgaattt--tgttgcatgtgttattcgttgtgaactgatttgggattttgatctgttgcgacagAAAAAAATGGCATCTCACATCGTTGGATACCCCCGTATGGGTCCCAAGAGAGAGCTCAAGTTCGCTCTCGAGTCTTTCTGGGATGGCAAGAGCAGCGCCG

upper sequence: PP1S33_110V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA19G29180.2 (Glycine max), 3'ss of exon 1
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgttt-ctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC----
  |  | || | |      | ||||| |||  |||  ||  | ||     |  |  |   |  ||   | |||  |  |   | || ||  | |  |||  ||||||  ||||| || ||| | |||||||||||||| ||||| |||||||| ||||||||||||||||| |||||  | ||||||||||||| |   ||    
-tattgccatgatctat--ggattttgttgc-atgtgttattcgttttatttatggagagtggacaagtgagagctaatttggagttttgatctgttgcgacagAAA-AATGGCATCTCACATCGTTGGATACCCCCGCATGGGTCCCAAGAGAGAGCTCAAGTTCGCTCTCGAGTCTTTCTGGGATGGCAAGAGCAGCGCCGAG

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|18350806|gb|BJ182857.1|BJ182857
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18373260|gb|BJ204862.1|BJ204862
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100401427|gb|BY990997.1|BY990997
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100384569|gb|BY987428.1|BY987428
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67702889|gb|BJ963122.1|BJ963122
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18374880|gb|BJ206458.1|BJ206458
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100385352|gb|BY950944.1|BY950944
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67709987|gb|BJ965803.1|BJ965803
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTT---                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18374087|gb|BJ205665.1|BJ205665
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67702366|gb|BJ962599.1|BJ962599
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTT---                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18368888|gb|BJ200973.1|BJ200973
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18332288|gb|BJ164301.1|BJ164301
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18362361|gb|BJ194431.1|BJ194431
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100377958|gb|BY949608.1|BY949608
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100362680|gb|BY947474.1|BY947474
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67718712|gb|BJ968971.1|BJ968971
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18361838|gb|BJ193905.1|BJ193905
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18328770|gb|BJ160775.1|BJ160775
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67702197|gb|BJ962430.1|BJ962430
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67719247|gb|BJ969506.1|BJ969506
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18327480|gb|BJ159483.1|BJ159483
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100433344|gb|BY960558.1|BY960558
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTT---                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|67712939|gb|BJ966388.1|BJ966388
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18330968|gb|BJ162974.1|BJ162974
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTT---                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|100386286|gb|BY987953.1|BY987953
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
EST: gi|18364414|gb|BJ196487.1|BJ196487
EST:     TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAG                         CAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA
genomic: TCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGA

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: 23

ATCTCTCGCTCCTCATCCCCTCTCTCCGCTACGTTTTGGAGAGGACGTTGTCGAGCTTCAGGCCTGTTTACTCAGGACAGGGCGTCTCTTCAGTCTTCAGgtacgtagcg ... gtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC
     tactaaa  putative branch site (score: 23)
                                          ttcgtttct  putative PPT
     tactaaactattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgacggacacgcttgtccagaattttcttgtgatgcattgatggtgcggatactaaactatttactcatcagatatcttcctgtgtattcgtttctgcagCAGAAACGATGGCTTCCCACGTGGTTGGATACCCCCGTATGGGCCCCAAGAGGGAGCTCAAGTTCGCTCTAGAGTCGATGTGGGATGGCAAGACCCAGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - tgatgca