Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA

Basic information

species Physcomitrella patens
transcript PP1S46_127V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA02G12930.1 (Glycine max), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattgg-agcttgtgactgaatgccatt---gactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                        | || | ||| ||  | | |      ||   |   || |   ||||  | | |||  ||||  || ||||||  ||||   ||   |  |||||| ||||||||||| || ||||| ||||| ||||| ||||| |||||||| ||  | ||||| ||||| |||||||||||||| |||||||||||||| 
-----------------------gtaagttattgattc-tctcattcttcgtggatccattta---attgtttttgttgctagctcttgtctgaatatcattactgaaacttacagGGCCTGCCATTTGGCCAAGCAAGCTTTTGATGAGGCAATTGCGGAGTTGGACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA01G07070.1 (Glycine max), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattgg-agcttgtgactgaatgccatt---gactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                        | || |  |||||  | | |    |  |   |   || |   ||||  | | |||  ||||  || ||||||  ||||   ||   |  |||||| ||||||||||| || ||||| ||||| ||||| ||||| |||||||| ||  | ||||| ||||| |||||||||||||| |||||||||||||| 
-----------------------gtaagttactggttc-tctcattctgcatggatccattta---attgtttttgttgctagctcttgtctgaatatcattactgaaacttacagGGCCTGCCATTTGGCTAAGCAAGCTTTTGATGAGGCAATTGCGGAGTTGGACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA07G35240.1 (Glycine max), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
      ||||   | | || |       ||      ||||||  |  |   | | |  |     | ||||     ||||    ||     |   |  |  |||   | ||||||| || |||||||| || ||||| || || ||||| ||||| ||||| || || || ||||| ||||| |||||||||||||| |||||||||||||| 
--cctcatttcacttattaca-------ctcccatatggtttc-caacacttctatgatcatctgcattggtccaattgcttatttcacttttttttc--tgaaacttgcagGGCCTGTCATTTGGCTAAGCAAGCTTTCGATGAGGCAATTGCAGAGTTAGACACCTTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA20G03120.1 (Glycine max), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgt--gttttttttttcagggattgaatatattggagcttgtgac---tgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                 |    ||    || |   |  | |   | || |  |||   ||  | ||| ||         ||| | |  ||||   |   |   | | ||  |  |||||| || |||||||| || ||||| || || ||||| ||||| ||||| || || || ||||| ||||| |||||||||||||| |||||||||||||| 
-----------------tcccaacactcctatcaatatgatcatctgcattggttccattgcttaggtatgttgccagctggcgttaatgacatttacctattactaacacttacagGGCCTGTCATTTGGCTAAGCAAGCTTTCGATGAGGCAATTGCAGAGTTAGACACCTTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv01s0011g00620.t01 (Vitis vinifera), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                |||  |  |  | |    |       ||    ||       |||| |  |||||  |||        ||| ||   ||||      ||| |  |||||| ||||||||||| || ||||| ||||| ||||| ||||| || ||||| || || || |||||||| ||||||||||||||  |||| |||||||| 
----------------gtaatgcatatgtttcaagcatagcatagactgttcaagccttttaaaagattgt-tatggcctgatttgaga---aatga----aacttttacagGGCCTGCCATTTGGCTAAGCAAGCTTTTGATGAGGCAATTGCAGAATTGGACACCTTGAGCGAGGAGTCATACAAGGACAGCACTCTGATTATGCAGCTG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv10s0003g01240.t01 (Vitis vinifera), 3'ss of exon 4
--gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
   |    ||  |  ||   |||||     ||||   | |    |     |||| ||||  ||      ||   |  ||| ||   |||   |  |||  |     | |  |||||| |||||  | || || ||||| ||||| || || ||  | |||||||||||  | | ||||||||| |||||||| ||||||||||| ||||| || 
gtattcctatcgtaatcttcagagaaagttctgt-aatagtcccttttttgtgtcttttgatt------ttttgtccatttgaaactgt--ttacatggtaacttatttcccagGGCCTGCCACCTCGCAAAGCAAGCTTTTGATGAAGCTATCTCAGAGTTGGATACTCTGAATGAGGAGTCTTACAAGGATAGCACATTGATTATGCAACTT

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ36243 (Selaginella moellendorffii), 3'ss of exon 4
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                              ||  |   |     || | | |||||  |||      |  | |  |   ||  ||||| ||   |  |  ||  ||   ||| || |||||  | || || ||||| |||||||| ||||| || ||| |||| ||| | || || || || |||||||||||||| |||||||||||||| 
------------------------------gtgag--agcgcctcgtcctctttttagtttt----ctccacttcaactgactttgtggctttgtttcgctg-ttgcaacagCGCTTGCCAGCTAGCCAAGCAAGCTTTTGACGATGCGATCGCGGAGCTGGACACGCTCAGCGAAGAATCCTACAAGGACAGCACTTTGATCATGCAGCTT

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|208392104|gb|DC949550.1|DC949550
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208372972|gb|DC940603.1|DC940603
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGANAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGNCGATTGCTGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGA
EST: gi|37826977|gb|BJ584989.1|BJ584989
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|162279433|gb|FC455549.1|FC455549
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208387774|gb|DC941343.1|DC941343
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATT-GGCGAA-CA-GCATTTGACGAGGCGAT-GCTGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGA
EST: gi|162271212|gb|FC447175.1|FC447175
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGA
EST: gi|18339275|gb|BJ171302.1|BJ171302
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|100364763|gb|BY947896.1|BY947896
EST:     CTTTGAACTTCTCGGTCTTTTATTATGAAATTTTTGA-CTCTCCTGAGAG                         GGCATGCCATT-GGNCGAAANCA-GCATTTGACGAGGCGATTGCTGAGTTG
genomic: CTTTGAACTTCTCGGTCTTTTATTATGAAATTTT-GAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGG-CGAAA-CAAGCATTTGACGAGGCGATTGCTGAGTTG
EST: gi|162272341|gb|FC448200.1|FC448200
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208374432|gb|DC941189.1|DC941189
EST:     CTTTGAACTTCTCGGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACA-GCATTTGACGAG-CGATTGCTGA
genomic: CTTTGAACTTCTCGG-TCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGA
EST: gi|208364026|gb|DC950374.1|DC950374
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208383174|gb|DC928216.1|DC928216
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208360734|gb|DC946458.1|DC946458
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208371151|gb|DC955971.1|DC955971
EST:     GCTTTGAACTTCTCGGTCTTTTANTATGAAATTTTGAACTCTCNTGAGAG                         GGCATGCCATTTGNCGAAACAAGCATTNGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37849036|gb|BJ607044.1|BJ607044
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACAAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37847526|gb|BJ605534.1|BJ605534
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208363146|gb|DC954346.1|DC954346
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|100415554|gb|BY992898.1|BY992898
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAA-TTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208377301|gb|DC927017.1|DC927017
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|162206622|gb|FC382380.1|FC382380
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208396773|gb|DC929068.1|DC929068
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208362580|gb|DC939504.1|DC939504
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAANCAAGCATTTGACGAGGCGATNGCTGAGTTG
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTG
EST: gi|208374603|gb|DC931956.1|DC931956
EST:     NCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAA-CA-GCATTTGACNAG-CGAT-GCTGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGA
EST: gi|162271211|gb|FC447174.1|FC447174
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37847911|gb|BJ605919.1|BJ605919
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208366230|gb|DC943804.1|DC943804
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208363024|gb|DC957979.1|DC957979
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208373768|gb|DC936567.1|DC936567
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAA-CAAGCATTTGACGAGGCGATNGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37848042|gb|BJ606050.1|BJ606050
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|67692292|gb|BJ952525.1|BJ952525
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37840472|gb|BJ598480.1|BJ598480
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208394573|gb|DC953612.1|DC953612
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208358561|gb|DC946522.1|DC946522
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|162272342|gb|FC448201.1|FC448201
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAA-CAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208374722|gb|DC932019.1|DC932019
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGANCTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACANGCATTTGACGAGGCGATTGCTGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGA
EST: gi|18337354|gb|BJ169378.1|BJ169378
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|162206621|gb|FC382379.1|FC382379
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208352798|gb|DC917762.1|DC917762
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37845773|gb|BJ603781.1|BJ603781
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|37841703|gb|BJ599711.1|BJ599711
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
EST: gi|208359294|gb|DC954189.1|DC954189
EST:     GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAG                         GGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA
genomic: GCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGA

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: 34 (upstream exon), 35 (downstream exon)
Score: 38

GCACTGCAGTGACGGACCTGGCACCGACGCATCCTATCCGACTGGGATTAGCTTTGAACTTCTCGGTCTTTTATTATGAAATTTTGAACTCTCCTGAGAGgtatgaattt ... actgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA
                                        cattgac  putative branch site (score: 38)
         attgaatatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgaattttggtcagtagagacttagctgttggttggttttacggcgtgttttttttttcagggattgaatatattggagcttgtgactgaatgccattgactgtggcagGGCATGCCATTTGGCGAAACAAGCATTTGACGAGGCGATTGCTGAGTTGGATACGTTAAGTGAGGAGTCGTACAAGGACAGCACATTGATCATGCAGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT