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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC

Basic information

species Oryza sativa
transcript LOC_Os08g03350.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 2
gtcagtcctactatcttcttcatcttcatctgaacgaagaacac-acgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
||  |  |      | |||||     | |       | |   || || ||| ||  | ||| ||  | |   ||     | | || | |||||||| ||||||||||| |||||| |  |||| ||| | |||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||||
gtacgcacacggcacatcttcgcgcgcgttacggttacggcgaccacaaacaaa--atgaacttttttttgttgtcaaatggcatatatgcagGGGCCCTGGCATCGCCGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGAAAGCGGTTC

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G180659_T02 (Zea mays), 3'ss of exon 3
----------gtcagtcctac---tatcttcttcatcttcatctgaacgaaga-acacacgaacgaaccaagaaattaatctaactgaattct------tgaattt---ttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
          ||| |  | |    |   | ||  |      || |   | | | | | |    ||    | ||   ||  | | |    |  |      |  || |    |||||||| |||||||||||||||||| |  |||| ||| | |||||||| |||||||||||||||||||||||||||||||||||||| |||||||||||||||
gtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTCCCCGGGAAGCGGTTC

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA19G24540.1 (Glycine max), 3'ss of exon 1
----gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttg-----cagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
       | |  |  | | || | ||  ||  | |    |           ||  ||     | |||  | |   | | ||  |||  |  ||     |||||| |||||  | | | | ||  |  |||||||||| ||||| |||||||| |||||||| |||||||||||||| |||||| | || |||||  |||| 
aacaactaattttcttcttttttccaaattattttttgtggtcctttttataagaaaaagttatattcgtatg-ttaattttgtgatctcctgtgttacagGGGTCCTGGTGTGGTGATTCTTGTGTTGTCATGGATAATCACACTCTACACACTGTGGCAAATGGTGGAGATGCATGAGATGATCCCTGGGAAAAGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA16G06750.1 (Glycine max), 3'ss of exon 1
gtcagtcctactatcttcttcatcttcatctgaacgaagaac--------acacgaacga-accaagaaatt---aatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
     | | |  | ||     |  |  |     |  || |||        | |   || | || | |   ||   ||| | |         ||  ||||| |||||| |||||  |  | || || |||||||||||||||||||| || ||||| || ||||| ||||| |||||||| || ||||| || || || || || 
----cttccatgacctcaaagaaataaaaaaagataaacaactttttagtatatatactatactatgcgttttttaatttgagaatcactatgttttttttcagGGGTCCTGGTGTAACTGTACTAATCCTGTCATGGATCATCACCCTGTACACTCTATGGCAAATGGTTGAGATGCATGAAATGGTACCTGGAAAACGTTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA16G06740.1 (Glycine max), 3'ss of exon 1
--gtcagtcctactatcttcttcatcttcatctgaacga------agaacacacgaacg--aaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
  |  | |  |  | | |     |     ||   ||          | |  |  ||  |  |  ||| ||| |  |  |  | |||  |   || |   |||||| |||||  | | | | ||  |  |||||||||| ||||| |||||||| || ||||| |||||||||||||| |||||||| || |||||  |||| 
ctgctactttttttttttataagaaacaaattataatagtattttggcatccttgagggccagtcaaaaaaattgttgatattaatattgtgatctc--cagGGGTCCTGGGGTGGTGATTCTTGTATTGTCATGGATAATCACACTCTACACACTATGGCAAATGGTGGAGATGCATGAGATGGTCCCTGGGAAAAGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA19G22590.1 (Glycine max), 3'ss of exon 2
gtcagtcctactatctt----cttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaat------ttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
    |   || | || |    ||||  |    |  |    |    |         || | |    ||  |  |  |||    |  |||      || | |||||| || ||  |  |  | || ||||| |||||||||||||| || ||||| || ||||| ||||| |||||||| || ||||| || || || ||||| 
--atggtataatgtcatgaaacttcggcacggttagtgtaacttgctttttttttaaactaagtgtttgttgatttgagaattacaatgtcctcttatacagGGGTCCAGGTGTAACTATACTTATCCTCTCATGGATCATCACCCTGTACACACTATGGCAAATGGTTGAGATGCATGAAATGGTTCCAGGAAAACGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT1G48640.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagtcc-tac-tatcttcttcatcttcatctgaacgaaga-acacacgaacgaaccaagaa-att---aatctaactgaattcttgaatttttgc-agGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
 | | | | ||  ||  || || || |    ||  |  ||   ||    ||    |  |  || |||    || | ||  | |  |   || | ||  |||||||| ||||| || || ||||| || |||||||| || || || |||||| | ||||| |||||||||||||| |||||||| ||||| || || || 
ttgaatacatatgtagttttttaatttcttactacataaatttacttttgatttgattagtaatattcgtgatattacaaagtcttgttatatatgttagGGGACCAGGCATAGCAGTCCTGATACTATCATGGATAATAACACTTTACACGTTATGGCAAATGGTGGAGATGCATGAGATGGTTCCCGGAAAACGCTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT1G61270.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
                | |  |||||  ||   | |||  | |    || ||  ||    |   || |||   |||| ||   ||||  ||||||||||||  | | |||| |||||||||||||| |||| ||| | |||||| | ||||| ||| | ||||||||||| ||| |    ||||| ||||| 
---------------gtatatatctttttcctga-gaattatattttaa-gagtcagtctagagatataa--aaattattttgtttt--cagGGGACCTGGAGTTGTGGTGTTGATCCTGTCATGGGTCATAACGTTATACACGTTCTGGCAAATGATTGAGATGCACGAAATGTTTGAAGGGAAACGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G01760.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
||   | | |        ||||  | || |  |   |     | | | ||  |   | | ||||  ||     |||      || ||| ||||||||||||  | | |||| |||||||||||||| | |||||| | ||||| || ||||| ||| | |||||||| |||||| |    ||| | ||||||
gtatcttccaactgagatttcaaatacaccaaatttatttgaagatgtacatatgtatatattagactttaccaat-----gatgttttcagGGGACCTGGGGTTGTGGTGTTGATCCTGTCATGGGTGATCACGTTATACACCCTCTGGCAAATGATTGAGATGCATGAGATGTTTGAAGGGCAACGGTTC

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv01s0010g02700.t01 (Vitis vinifera), 3'ss of exon 1
-------gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaat-taatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
       |  | |     ||| |   |  | ||||   ||  |      |  |        ||| |  | | ||   | |   || |        |  ||||| |||||  | |   | ||  | |||||||||||||||||  | ||||| || ||||| ||||| |||||||| || ||||| || |||||| |||| 
tatttaagggattttcggtatgtgggtagtattcaagggattgttatctattctcgatcttcaaaagctctgataacagtcgtttttcttggaaatttagGGGTCCTGGGGTGGTCATTCTTGTTCTGTCATGGATCATCACATTGTACACTCTATGGCAAATGGTTGAGATGCATGAAATGGTTCCTGGGAAGAGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv01s0010g02490.t01 (Vitis vinifera), 3'ss of exon 1
gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
    ||  |  | | |    |  ||  |     |   |        ||| |      ||| ||     |  |   | |||  || |||  ||||| || ||  | |   | || || || ||||||||||||||  | ||||| || ||||| ||||| |||||||| || ||||| |||||||||||||| 
----gtatttttctttctcactcctatactcttatatatcttctgagaatggggttggaa-ttgtaacatttttttgctttgatattt--agGGGCCCAGGGGTGGTTATTCTTATACTTTCATGGATCATCACTTTGTACACTCTATGGCAAATGGTTGAGATGCATGAAATGGTTCCCGGGAAGCGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv14s0171g00400.t01 (Vitis vinifera), 3'ss of exon 2
gtcagtcctac-tatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaa-------gaaattaatc-taactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
||  ||| |   | ||||    |     |  ||  |  |  |   | |   ||  | |        |  || | | |||   || | |||| | ||| |||||| |||||  | | | |  || | || ||||||||||| || || ||||| || ||||| ||||| ||||||||||||||||| || |||||  |||| 
gtatgtcttttgtgtctttacaagagatagttgc-cttattatttatgtctgattccatttgattaaggttgaacataaaaaaaatattga-tcttttcagGGGTCCTGGTGTGGTGATAATGGTGCTATCATGGATCATTACTCTTTACACACTATGGCAAATGGTTGAGATGCACGAGATGGTTCCTGGGAAAAGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S105_62V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
                        |  | ||||      ||||     ||| || |   |     |   ||      |||| |  || ||   | ||| |    |  || ||| ||||| || || |||    |||| || ||||||||||||||||| |||| ||| || |||||||||||||| ||||||||    || || || | |||||| 
gtattaacttcactatatttgaaagcaattcctgtcgcgttctcttatttcctc-gcttgctctgccaccgttttctccaacattttgat---aatga-tgtgggcgttcttgtagGGGTCCAGGTATCCTAATGCTCATTCTGTCATGGATCATCACCCTCTTCACTCTCTGGCAGATGGTGGAAATGCACGAAGCTGTCCCGGGTAGGCGGTTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S79_71V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacga--acgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
                    | |||| |   | || |    || ||| |     |   |  | |      || |||   ||   | |  |   |    ||    || |||| ||||| || ||  ||    |||| ||||| |||||| ||||||| |||| ||| || ||||| |||||||||||||||||    |||||||| ||||| |||
gtatcaaccactacaccacagccagttcacgtttccttcctattttccttccgccattgttcccttctccacaaactttgaggatgacgtgggta---tc----atgtttgtagGGGTCCAGGTCTCCTAATGCTCATCCTTTCATGGGTCATCACCCTCTTCACACTCTGGCAAATGGTGGAGATGCACGAAGCTGTGCCCGGAAAGCGATTC

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S5_176V6.1 (Physcomitrella patens), 3'ss of exon 2
----------gtca-gtcctact--atcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
           ||| ||  |     |||    |||   |||         |     || |   |   ||        |  |||| ||||   |       ||||||||||| ||  | | ||||||| |  |||| ||||| |||||||| |||||||| |||||||||||||| ||||||||||||||    |||||||| |||
gtgagggctcctcacgttttgtctaatccgtctcagagtcacacagtttcatgttgca-gtttgcggcagtgggcacaagtaacggaatggctattcacatgcagGGGACCGGGAGTGGTGGTGCTGGTGGTGTCGTGGATGATCACGCTGTACACGCTCTGGCAGATGGTGGAAATGCACGAGATGGTCGAGGGGAAGCGTTTC

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ10950 (Selaginella moellendorffii), 3'ss of exon 2
---------gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
         ||  |||   |    | || || || ||| |    ||  ||        | |       ||  ||  | |    ||| ||   |  || ||||||||| ||  ||   || ||  | ||||| ||| | ||||| ||||||||||||||||| |||||||| |||||||| ||||| || |||||| | || 
accctagtcgtgtgtcgcccgcaatcctccagctccatgttcttgacaaatggttttccaacttttccaagcaactttaa-agatttttttttcgttccagGGGACCGGGGGTCCTTGTTCTTGTACTGTCGTGGGTGATCACACTCTACACGCTGTGGCAAATGGTGGAAATGCACGAAATGGTCCCGGGGAAGAGATTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ25874 (Selaginella moellendorffii), 3'ss of exon 2
---------gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
         |  |  |  |  | |||   || |  ||| |    ||  ||        | |       ||  ||  | |  || || ||   |  || ||||||||| ||  ||  ||| ||  | || || ||| | ||||| ||||||||||||||||| |||||||| |||||||| ||||| || |||||| | || 
gtgtcacccgcaatcctcaagaactttcacagccccatgttcttgacaaatcgttttccaacttttccaagcaactttaaagatttgtttt-tcgttccagGGGACCAGGGGTCCTGGTTCTTGTACTCTCGTGGGTGATCACACTCTACACGCTGTGGCAAATGGTGGAAATGCACGAAATGGTCCCGGGGAAGAGATTT

upper sequence: LOC_Os08g03350.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ10949 (Selaginella moellendorffii), 3'ss of exon 1
gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
                                       |||   |||| |    ||    |  || |    |  |||||   ||||| |||||| ||||| |||   |||||  |||| || |||| | |||||||||||||||| ||||| ||||||||||||||||||||||||   || ||||| |||
-------------------------------------gtaacgttcgaatgttataacgtctacattttttagggttcttcg-tttttccagGGGGCCTGGGATCTTCGTGCTCCTCCTCTCCTGGACCGTCACGCTCTACACGCTATGGCAAATGGTGGAGATGCACGAGATGGTGGAGGGCAAGCGCTTC

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|29617404|gb|CB622416.1|CB622416
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|87005439|gb|CI285661.1|CI285661
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|13420701|gb|AU174791.1|AU174791
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|88347796|gb|CI655149.1|CI655149
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|88355012|gb|CI615893.1|CI615893
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGATG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCCTCTACA
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGC-TCTACA
EST: gi|87004981|gb|CI308857.1|CI308857
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|88367905|gb|CI572626.1|CI572626
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|88334812|gb|CI647194.1|CI647194
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|29630537|gb|CB635546.1|CB635546
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|29616821|gb|CB621833.1|CB621833
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|29634583|gb|CB639592.1|CB639592
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|86826172|gb|CI311031.1|CI311031
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|29625305|gb|CB630316.1|CB630316
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
EST: gi|44680081|gb|AB118076.1|AB118076
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTG                         GGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACAC

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: 74 (upstream exon), 75 (downstream exon)
Score: 27

CCAGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtccta ... atttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC
                           atctaac  putative branch site (score: 27)
                                              tttttgc  putative PPT
                  aagaaattaatctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcagGGGACCTGGCATCGCGGTGCTGATCCTGTCATGGATCATCACGCTCTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTGCCCGGGAAGCGGTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG