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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagagcacgtcatggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT

Basic information

species Physcomitrella patens
transcript PP1S7_342V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os09g36830.1 (Oryza sativa), 3'ss of exon 1
tttagagcacgtcatggctgtctt---ttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgttt---cttatttgtgaa-cagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
         |   |||  |||||     |  |  ||       |  | |   ||| |||| ||  |    |||   |  |  ||   |   | | ||||||   ||||| || || ||| | |||||||||    || | |||||||| ||||||||||| || |||||||||||||| ||||| || ||||||||||| ||||| |
-------tgctggatgattgtctcatgcttctgttgtatccatgtatattgttttttatcattcatgtacaaagtcgattagattcatgtgcatgtttgtgtttcagGCTGCAAACTACCTCAACATCAAGGGACTGCTGGATCTGACCTGCCAGACCGTGGCTGACATGATCAAGGGGAAGACACCAGAGGAGATCCGCAAGACCT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os11g26910.1 (Oryza sativa), 3'ss of exon 1
tttagagcacgtcatggctgtcttttcttaatgcc--ctagcgcttttgaatttgt-atccttgctacctaaatgaggcttaat-gtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
  |  |  | || ||  || |  |  || ||||       | ||||| |   | || ||   |||| | || |  | | ||| | | |||| |  |   | ||||| || || ||| | |||||||||   ||| | || || ||||||||||| || || |||||||||||||| ||||| |||||||||||||| ||||| |
--tgaactatgt-attccttttgtggctgaatgttgatctgtgctttagccatagtgattactgcttcttataccatgtttatttgattctcaaatccca-cagGCCGCGAACTACCTCAACATCAAGGGGTTGCTGGACCTTACTTGCCAGACTGTTGCTGACATGATCAAGGGGAAGACTCCTGAGGAGATCCGCAAGACCT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G032562_T01 (Zea mays), 3'ss of exon 1
tttagagcacgtcatggctgtcttt-tcttaatgccct-agcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
    |   |  |  ||  ||| ||   | | ||    | || |      |||   |||  |       || ||   |  |     | ||  |   |  |||||| ||  | ||| || | |||||     || | || ||||| |||||| |||| ||||||||||||||||| ||||| || |||||||| ||  ||||||
--aggcagaattggtgtttgtattggccattatattttgagtgtcaagaaataaatatattgtaggattatattgtgactgtccatgctactgcattcacagGCTGCAGACTACCTGGAGATCAATGGGCTGCTGGACCTGACCTGCCAGGCCGTCGCGGACATGATCAAGGGGAAGACTCCAGAGGAGATACGCGAGACAT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA16G23230.1 (Glycine max), 3'ss of exon 1
--tttagagcacgtcatggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttctta--tttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
     |  | |     | |    | | | ||       |     | ||   |||   || ||  ||  | ||| |     | | ||||  |  ||  |  |||||| || || ||||||||||||||||   | || || || ||||||||||| ||||| |||||||||||||| ||||| |||||||| || || |||||||
taaccattgtagacttttgtctgcctgtgtttgcatatttttaatcttaggtttac-tctttattatgtcaattaa---cactctttcaaaatttcctatacagGCTGCAAACTACTTGAACATCAAGAGCCTTTTGGACCTTACTTGCCAGACAGTAGCAGACATGATCAAGGGAAAGACTCCTGAGGAAATTCGCAAGACAT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA02G05120.1 (Glycine max), 3'ss of exon 1
--tttagagcacgtcatggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
   |  | |  |   ||   | | ||||  ||      |  | ||||   || |  ||     ||  |        | || |||    || | | |   ||||| || ||||||||||| |||||||   | || || || ||||||||||| ||||| |||||||||||||| ||||| |||||||| || || |||||||
gcctgtgtgtgcaatatttgtatgttttaatatcaggtttactctttattatgtcaattaacactggcattcctttgttttatgaaaattttctatc--cagGCTGCAAATTACTTGAATATCAAGAGCCTTTTGGACCTTACTTGCCAGACAGTAGCAGACATGATCAAGGGAAAGACTCCTGAGGAAATTCGCAAGACAT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ22022 (Selaginella moellendorffii), 3'ss of exon 1
---------tttagagcacgtcatggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctaccta-aatgaggcttaatgtttcttatttgtgaa----cagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
          || |  |   |  |  |   |||||  |   ||  |     |||||  | | |   ||| | ||  | |||     |   || |     |||| |      ||||| || || ||  | ||||||  ||| ||| | |||||||| ||||| ||||| ||||||||||||||||| |||||||| ||||||||||| ||||| |
gtaggatttcttcgttcgatttcttcccccctttttctctcgcttttctcgttttgggtct-tgagctttcgactgacaatcgatttgggtgatctggttttgcgttgttccagGCCGCGAACTATCTCAACATCCGGAACTTGCTGGATCTGACGTGCCAAACCGTGGCGGACATGATCAAGGGCAAGACCCCGGAGGAGATCCGCAAGACTT

upper sequence: PP1S7_342V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ18284 (Selaginella moellendorffii), 3'ss of exon 1
tttagagcacgtcat---ggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
 |  ||   | || |      | |     | |  | | || ||  || |   ||||  || |         | |||   |  || |   | ||||||   ||||| || || ||  | ||||||  ||| ||| | |||||||| ||||| ||||| ||||||||||||||||| |||||||| ||||||||||| ||||| |
gtaggatttcttcgttcgatttcttcccccctttttctctcgcttttctcgttttgggtcttgagctttcgactgacaatcgatttgggtgatttgttc-cagGCCGCGAACTATCTCAACATCCGGAACTTGCTGGATCTGACGTGCCAAACCGTGGCGGACATGATCAAGGGCAAGACCCCGGAGGAGATCCGCAAGACTT

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|208373415|gb|DC941040.1|DC941040
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162239821|gb|FC415660.1|FC415660
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|37839365|gb|BJ597373.1|BJ597373
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTTGTTAGATCTGACTTGCCAGAC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAA-TTTGTTAGATCTGACTTGCCAGAC
EST: gi|67578633|gb|BJ950800.1|BJ950800
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162212530|gb|FC388506.1|FC388506
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67697393|gb|BJ957626.1|BJ957626
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208367159|gb|DC935959.1|DC935959
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67697230|gb|BJ957463.1|BJ957463
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67692784|gb|BJ953017.1|BJ953017
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162245391|gb|FC421293.1|FC421293
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208359488|gb|DC954041.1|DC954041
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67701541|gb|BJ961774.1|BJ961774
EST:     TTGTCAAGGTCGATCCAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACCTGAACATCAAGAATTTGTTAGATCTGACCTGCCAGACC
genomic: TTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208383618|gb|DC907009.1|DC907009
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67569515|gb|BJ942339.1|BJ942339
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67508262|gb|BJ941131.1|BJ941131
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|18341925|gb|BJ173960.1|BJ173960
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208351139|gb|DC921357.1|DC921357
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162245392|gb|FC421294.1|FC421294
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208399670|gb|DC920888.1|DC920888
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162239822|gb|FC415661.1|FC415661
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|18351941|gb|BJ183993.1|BJ183993
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67570987|gb|BJ943811.1|BJ943811
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|37820995|gb|BJ579061.1|BJ579061
EST:     ATGCCGATTTNGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|22491919|gb|BU051842.1|BU051842
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67694292|gb|BJ954525.1|BJ954525
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|18361673|gb|BJ193739.1|BJ193739
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67573843|gb|BJ946667.1|BJ946667
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67574004|gb|BJ946828.1|BJ946828
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|67568932|gb|BJ941756.1|BJ941756
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208384859|gb|DC907472.1|DC907472
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|162270943|gb|FC447362.1|FC447362
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
EST: gi|208353733|gb|DC949767.1|DC949767
EST:     ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTG                         GCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC
genomic: ATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACC

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: 32 (upstream exon), 28 (downstream exon)
Score: 28

GCCCAGTGATGACAAGCAAGCCACCCCCGAGGAAGAGATTAAAGCATGGGATGCCGATTTTGTCAAGGTCGATCAAGCAACCTTGTTCGACCTCATACTGgtatgaaact ... ttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT
                                     tttcttattt  CT-rich tract
                               ttaatgtttcttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttagagcacgtcatggctgtcttttcttaatgccctagcgcttttgaatttgtatccttgctacctaaatgaggcttaatgtttcttatttgtgaacagGCGGCCAATTACTTGAACATCAAGAATTTGTTAGATCTGACTTGCCAGACCGTAGCGGACATGATCAAGGGTAAGACCCCTGAGGAGATCCGTAAGACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC