Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG

Basic information

species Physcomitrella patens
transcript PP1S31_178V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcat-ctttgtcta---attagtttgtgggtggcgg--tcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                   | | ||  | ||    |||   || | | | |||  ||  ||||| | || | | ||   |||  ||||  | |    |  | |||||| || |||||||| |||||| | ||    ||||| || ||||||||||||||||||||||||||||| || |||||    ||||| |||   || ||||
------------------gtactctcatgcaaaacgaaagctgtatggttttgcttg--gattcctgctctatttatgtattgatttgctgttctttggtttacagGTTATTGTGAGTGGGAAGCTTAGGGCTCAGCGTGCTAAATCCATGAAGTTCAAGGACGGATACATGATTTCTTCTGGTTATCCTGTTAACTTGTATATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os03g38000.2 (Oryza sativa), 3'ss of exon 2
aattgagctt-tagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
   |||| |  | | ||    | |   |||||| || ||   ||    || |||||   | ||| |  ||   || ||   ||| |   |        ||||| || || |||||||||||  | ||     | || |||||||||||||||||||| || |||||||| ||||||||    || ||||| || |||||||
--gtgagttccttgtacaa--taaaaattacatgtgcaaa--tgtgatattttgtacacacattaaagttgaactgatccctttattcttatt-----cagGTCATTGTAAGTGGAAAGCTCAGGGCCCAAAGAGCCAAGTCCATGAAGTTCAAGGATGGTTACATGATCTCATCTGGTCAGCCAGTCAATGAGTACATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G099352_T02 (Zea mays), 3'ss of exon 1
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
              | || | |  |||     |||  |   ||     |  |||  ||  || |||||        || || | |   |     | ||||||||| ||||||||||||||  | ||     | || |||||||||||||||||||| || |||||||| ||||||||    || || ||||| |||||||
-----------gtgagtgttcctttgtacttcctgagaacatgttcatt--tgttagtgaatgcatctcgacagcctttgtctctt--ttaaaataacagGTGATCGTGAGTGGAAAGCTCAGGGCCCAAAGAGCCAAGTCCATGAAGTTCAAGGATGGCTACATGATCTCATCTGGTCAGCCAGTGAACGAGTACATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G074300_T03 (Zea mays), 3'ss of exon 2
aattgagctttagcactgcttcactgttaca-tctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
      | |   || |   | |||| | |   ||||     || | |   ||||   ||  || ||| |  | |    |  |||||      |    |||||| || ||||||||||||||  | ||     | || |||||||||||||||||||| || |||||||| ||||||||    || || || || ||||| |
------gttagtgctcctgtgcactatgagggtctgttcattttctgatgattg---gtgaatgcatgtc-gacagccttatttgtt-----ctaatacagGTCATTGTGAGTGGAAAGCTCAGGGCTCAAAGAGCCAAGTCCATGAAGTTCAAGGATGGCTACATGATCTCATCTGGTCAGCCAGTGAATGAGTACATCG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA09G28440.1 (Glycine max), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                 | ||   |  |  |     || |||| |   |  | ||||||   |  | |   | |||||  | | ||  | | |    ||||| || || |||||||| ||  | ||     | || ||||||||||| |||||||| ||||||||||| || ||||||   |||||||| || |||||||
-----------------gtttgttttatggactcctaatattgtat--tgctttatgtaa--tggtttggttgtaattgttgtttgacttgag----cagGTCATTGTTAGTGGAAAACTGAGAGCTCAGAGAGCCAAGTCCATGAAATTCAAGGATGGATACATGATTTCTTCTGGACAACCTGTCAAGGATTACATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                    | | ||  |           ||     |  ||   |  ||| | | || | |    ||  |       |   |    ||||| || ||||||||||| || ||||| || ||||| ||||| |||||||||||||| || |||||| | || || ||    ||   ||| || |||||||
-------------------gtgagtgcaaacctctttgttttctgttacctttctttcagaat-acctctatagggttctt------atcatgtatgcagGTCATTGTGAGTGGAAAACTCCGTGCTGCACGTGCTAAGTCGATGAAGTTCAAGGATGGTTACATGGTTTCCTCAGGTCAGCCAACCAAGGAATACATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ31038 (Selaginella moellendorffii), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcgg-tcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                                      |  || | || | | |  | |  ||  ||||    |  | | ||| |   ||||   |  |||||||| ||||| || ||||| || ||    || || ||||| |||||||||||||||||||||||||| || ||||| ||||| || ||||| | ||| |
--------------------------------------gtatggacga-actctcggcattttgctcttcaggttgtaactttattcctggctcctttcagGTGATTGTGAGCGGCAAGCTCCGAGCCCAACGCGCCAAGTCGATGAAGTTCAAGGACGGATACATGATCTCGTCTGGCAGCCCCGTGAACGAGTTCATCG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ34304 (Selaginella moellendorffii), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcgg-tcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                                      |  || | || | | |  | |  ||  ||||    |  | | ||  |   ||||   |  |||||||| ||||| || ||||| || ||    || || ||||| |||||||||||||||||||||||||| || ||||| ||||| || ||||| | |||||
--------------------------------------gtatggacga-actctcggcattttgctcttcaggttgtaacttcattcctggctcctttcagGTGATTGTGAGCGGCAAGCTCCGAGCCCAACGCGCCAAGTCGATGAAGTTCAAGGACGGATACATGATCTCGTCTGGCAGCCCCGTGAACGAGTTCATTG

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ34676 (Selaginella moellendorffii), 3'ss of exon 4
aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcgg-tcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                                      |  || | || | | |  | |  ||  ||||    |  | | ||| |   ||||   |  |||||||| ||||| || ||||| || ||    || || ||||| |||||||||||||||||||||||||| || ||||| ||||| || ||||| | |||||
--------------------------------------gtatggacga-actctcggcattttgctcttcaggttgtaactttattcctggctcctttcagGTGATTGTGAGCGGCAAGCTCCGAGCCCAACGCGCCAAGTCGATGAAGTTCAAGGACGGATACATGATCTCGTCTGGCAGCCCCGTGAACGAGTTCATTG

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|7207241|gb|AW561244.1|AW561244
EST:     GTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|7287192|gb|AW599679.1|AW599679
EST:     GTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162232978|gb|FC407566.1|FC407566
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162278299|gb|FC454177.1|FC454177
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|18328342|gb|BJ160346.1|BJ160346
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTG
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTG
EST: gi|18336578|gb|BJ168600.1|BJ168600
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|18372625|gb|BJ204227.1|BJ204227
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCNTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162208528|gb|FC384491.1|FC384491
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162265194|gb|FC441281.1|FC441281
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|67727225|gb|BJ977484.1|BJ977484
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162265193|gb|FC441280.1|FC441280
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|6167437|gb|AW145701.1|AW145701
EST:     GTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162232977|gb|FC407565.1|FC407565
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|37843467|gb|BJ601475.1|BJ601475
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|18359275|gb|BJ191335.1|BJ191335
EST:     CTATGGAGTGCTTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: CTATGGAGTGCT-GAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|67718871|gb|BJ969130.1|BJ969130
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|15327073|gb|BI487550.1|BI487550
EST:     GCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162277242|gb|FC453672.1|FC453672
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|18349896|gb|BJ181947.1|BJ181947
EST:     CTATGGAAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: CTATGGA-GTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162259149|gb|FC435195.1|FC435195
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162259148|gb|FC435194.1|FC435194
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|19787833|gb|BQ040676.1|BQ040676
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162206671|gb|FC382429.1|FC382429
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162208527|gb|FC384490.1|FC384490
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|18372947|gb|BJ204549.1|BJ204549
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162254012|gb|FC430646.1|FC430646
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162277243|gb|FC453673.1|FC453673
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|37828865|gb|BJ586877.1|BJ586877
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162271940|gb|FC448150.1|FC448150
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|37852687|gb|BJ610695.1|BJ610695
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162271941|gb|FC448151.1|FC448151
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|162206672|gb|FC382430.1|FC382430
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCTAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
EST: gi|37852142|gb|BJ610150.1|BJ610150
EST:     GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAG                         GTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC
genomic: GCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTC

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: 68

GGCTTGCTATGGAGTGCTGAGGTTCATCATGGAGAGCGGTGCCAAGGGTTGTGAGgtatggtaac ... gcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG
                         gtctaat  putative branch site (score: 68)
                            taattagttt  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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aattgagctttagcactgcttcactgttacatctggaagattgcaggatattgtatgtagattcatctttgtctaattagtttgtgggtggcggtcacagGTGATAGTGAGTGGAAAGCTTCGTGCAGCTCGTGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - tgcttca