Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atataatctgtaattttttgacatagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC

Basic information

species Oryza sativa
transcript LOC_Os03g27260.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA15G08210.1 (Glycine max), 3'ss of exon 5
-atataatctgtaattttttga-catagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
 || ||  ||||  |||  ||   |   || |    | |   | | |||  |||  |   | | | |||  | |   |  |        | |||   || ||| || ||||| ||||| ||||||||||| ||  |||| |||||||||||||| || || || |||||||| || || ||  | |||||| | ||||||||
tatttatgctgttgtttgatgggtaggacccattgaaggagattatttt--tggacatgattgtgatgatttctagtctgagttacatatgtttggttgtagGGAAAAAGGTGAGCAAAGCTCCTAAGATACAACGGCTGGTCACTCCCCTGACCCTCCAAAGAAAGAGGGCAAGGATTGCAGATAAGAAGAAGAGAATTGC

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 5
atataatctgtaattttttgacatagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
 |   |    | |  ||  || ||||  | |  | || |    | || |    || |||    ||||    | |  |  |  |||   |||||    |||||||| | |||||||| || |||||||||||||||||||| || ||  ||||||||||||||||||| || ||||| ||  | |||||| | | ||||||
gtgagacac-tgaacttgagaaatag--tggtttctgaatcacacttgagaaataatgtttt-ctgaaacttgtttcttctgtttggatttttg--acagGCAAGGAAGTTAGCAAAGCCCCTAAGATCCAGAGGCTTGTGACCCCATTGACTCTTCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAAAATTGC

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 3'ss of exon 5
atataatctgtaattttttgaca--tagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaac-catttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
  | || |   ||   |  || |  |||  |  | ||   ||  |||| ||   |   | ||    |||   |||||| ||   ||     ||     ||||||||||||||||||||||||||||||||||||||||||||| |||||  |||| || ||||||||||| || ||||| ||  | |||||| | ||||| ||
--acaaacaagaagggtaagaaaattagattcacttaaagagataattgaaaactgtttatacgattgatg-atttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: AT5G10360.1 (Arabidopsis thaliana), 3'ss of exon 5
atataatctgtaattttttgacatagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaac-catttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
         ||||       |  |||  |  | ||   ||  |||| ||   |   | ||    |||   |||||| ||   ||     ||     ||||||||||||||||||||||||||||||||||||||||||||| |||||  |||| || ||||||||||| || ||||| ||  | |||||| | ||||| ||
---------gtaag----aaaattagattcacttaaagagataattgaaaactgtttatacgattgatg-atttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: PP1S253_7V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------atataatc--tgtaattttttgacatagcctagcatatgcagtcaat--ttaatggttagtgta-------gagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
                || |||   |||  | |||| |  |    |     || ||||   |  || |  |  || | |       | |  |  ||   |||  ||       |   | | | |||||||||||   ||||| ||||| || |||||||||||||| |||||| ||||| | ||||||||  |    ||| | ||    ||||||  | |  | ||
gtatggtcttgactcttaaaatgagtgttgtattttaatgtgttttccttcattcagttgctggtttagagccaggggatgtgactgcgaggggctgactactgacggacgcatgcgtgctttcagGCAAGAAGAGGAGCAAAGCTCCGAAAATCCAGAGGCTTGTAACTCCCTTGACTTTGCAGAGGAAACGCCGAAGAGTGGCAATCAAGAAGGCACGCGTCGC

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 5
lower sequence: PP1S3195_1V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------atataatctgtaattttttgacatagcctagcatatgcagtca---atttaatg-----gttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
                  || |    |||  | ||||| |||           |||||||    || ||  |     |  | ||| | |  || |  | |||  ||   |   |   | | | |||||||||||   |||||||| || ||||||||||||||||| |||||  ||||| | ||||||||| |    ||| | ||    ||||||    |  | ||
gtacagtcatggctcctgatgtggg-tgtcgtattttgccatgcttcctttcgtgcagtcgccgatgtagagcgggggccattgttgcgaggagccctctactgacgtctgcgtgcgtgctttcagGCAAGAAGAGGAGCAAGGCACCGAAGATCCAGAGGCTTGTGACTCCTTTGACTTTGCAGAGGAAGCGCCGTAGAGTGGCAATCAAGAAGGCGCGTGTCGC

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|86415849|gb|CI029860.1|CI029860
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|33663295|gb|CF294262.1|CF294262
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|8858052|gb|AU095370.1|AU095370
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|313080801|gb|HO213598.1|HO213598
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|4881015|gb|AU065314.1|AU065314
EST:     TGTCCGCAAGTATGTCAACACTTANCGCAGAACCTTCACTACCAAGAACG                         GCAAGAANGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88217674|gb|CI217523.1|CI217523
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|4880957|gb|AU065256.1|AU065256
EST:     GTCCGCAAGTATGTTCAACACTTACCGCAGAACCTTCACTANCAAGAACG                         GCAAGAANGTTAGCAAGGGCTCCTAAGATCCAGAAGGCTTGT
genomic: GTCCGCAAGTATGT-CAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGG-CTCCTAAGATCCAGA-GGCTTGT
EST: gi|86509309|gb|CI151942.1|CI151942
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86511400|gb|CI154033.1|CI154033
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|87008622|gb|CI315080.1|CI315080
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGGCTTGGTCACTCCCCT
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGA-GGCTT-GTCACTCCCCT
EST: gi|86526943|gb|CI167149.1|CI167149
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86510871|gb|CI153504.1|CI153504
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88832993|gb|CI369883.1|CI369883
EST:     GAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: GAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|163928140|gb|EG713572.1|EG713572
EST:     TGTCCGCAAGTATGTCAACACTTACC--AGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|89190134|gb|CI013701.1|CI013701
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88243712|gb|CI242834.1|CI242834
EST:     CACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: CACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88547433|gb|CI477724.1|CI477724
EST:     CCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: CCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86540551|gb|CI180757.1|CI180757
EST:     TGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88216343|gb|CI216192.1|CI216192
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88969853|gb|CI383355.1|CI383355
EST:     CACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: CACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88983654|gb|CI028800.1|CI028800
EST:     GTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: GTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|163926374|gb|EG711874.1|EG711874
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86544829|gb|CI185035.1|CI185035
EST:     ACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: ACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86492000|gb|CI134633.1|CI134633
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86546761|gb|CI186967.1|CI186967
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCGCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|24208800|gb|AU225827.1|AU225827
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88239364|gb|CI240526.1|CI240526
EST:     TGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88235660|gb|CI234862.1|CI234862
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88200458|gb|CI200308.1|CI200308
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|87032995|gb|CI187619.1|CI187619
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88479047|gb|CI416318.1|CI416318
EST:     TACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88199121|gb|CI198971.1|CI198971
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGGACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|86542487|gb|CI182693.1|CI182693
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|426790|gb|D22862.1|D22862
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|87033765|gb|CI188389.1|CI188389
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|163926782|gb|EG715070.1|EG715070
EST:     TGTCCGCAAGTATGTCAACACTTACC--AGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88242642|gb|CI242491.1|CI242491
EST:     TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA
EST: gi|88215117|gb|CI214966.1|CI214966
EST:     TGTCCGCAAGTATGTCTACACTTACCGCAGAACCTTCACTACCAAGAACG                         GCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACACCCCTGA
genomic: TGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGA

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: 65 (upstream exon), 42 (downstream exon)
Score: 23

AAGAGGGCATCTAAGATCAGGAAGCTGTTTAACCTTGCCAAGGATGATGATGTCCGCAAGTATGTCAACACTTACCGCAGAACCTTCACTACCAAGAACGgtgagcattc ... tttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatggttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC
                agctgac  putative branch site (score: 23)
                                  ccatttatttttttcc  putative PPT
                                aaccatttattttttt  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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atataatctgtaattttttgacatagcctagcatatgcagtcaatttaatggttagtgtagagctgacctatttaccaaccatttatttttttcctgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTCACTCCCCTGACTCTTCAGAGGAAGAGGGCGAGAATCGCCCAGAAGAAGCAAAGAATTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - -catatgc