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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC

Basic information

species Physcomitrella patens
transcript PP1S309_84V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 10
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                                        ||  |||    ||  |    |  || || |   | | |   |   | ||  |    | |     |||     ||||| || || || || ||||| ||||||||||| || ||||| |||||||| ||||| || || || || ||||| ||||| |||||| ||||    ||  
-------------------------------------------------------gtagctgaagccaaaggcacaccatg-tttagtttagactcaaattttgcacttactggtttcactttattgtcagGCTGTTGGAAAAGTCCTGCCTGAGCTGAATGGAAAACTCACTGGTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGA

upper sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 10
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                 | ||      |   |    |  || | ||      ||| || |  ||| |   | ||  |  ||      | ||   |  |     ||      ||||||||| || || || || || ||||| |||||||| ||||| || ||||| |||||||| |||||||||||||| |||||||||||  |||||   || |
---------------------------------gtacaagatggatggacacagattttatgcttactattttcagtgctggt---atatgagattgg-----gtttgttttat--aaaatc-----acagGCCGTTGGGAAAGTTCTTCCTGAGCTAAATGGGAAACTCACTGGGATGGCATTCCGTGTACCGACTCCCAATGTTTCTGTGGTGGACTTGACTTGCCGGC

upper sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 10
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcg-gaattgtctgcact---gattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                                 |  ||| |   ||  |    ||| | |||  |     ||||  | |||  |  | ||   |    | |||        |||  ||||| || || || || || |||||||| ||||| || ||||| || ||||| |||||||| |||||||||||||| |||||||||||  |||||   || |
------------------------------------------------gtacaagatggatggacacagattttatgctttctattttcagtactggtat--ttgtgattaggtttgttttatgaaatca--cagGCTGTTGGGAAAGTTCTTCCAGAGCTAAATGGAAAACTCACTGGGATGGCATTCCGTGTTCCGACTCCCAATGTTTCTGTGGTGGACTTGACTTGCCGGC

upper sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ15779 (Selaginella moellendorffii), 3'ss of exon 7
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                                                       ||||    | ||  | |||  | |  |  ||| ||       ||||   |||||   ||||| || |||||||| || |||||||| ||||| |||||||| || ||||| ||||||||||| ||||| || || || || || ||  ||||    ||  
-----------------------------------------------------------------------gtctcttttaatggaccat--gtccaaa-gtcactaaatgttttcg---ttttc--tcagGCTGTCGGCAAGGTTCTTCCAGAGCTCAATGGCAAGCTCACAGGAATGGCGTTCCGTGTCCCAACTCCAAACGTCTCAGTCGTCGACTTGACGTGCCGAT

upper sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ32914 (Selaginella moellendorffii), 3'ss of exon 9
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                                                       ||||    | ||  | |||  | |  |  ||| ||       ||||   |||||   ||||| || |||||||| || |||||||| ||||| |||||||| || ||||| ||||||||||| ||||| || || || || || ||  ||||    ||  
-------------------------------------------------------------------gcacgtctcttttaatggaccat--gtccaaa-gtcactaaatgttttcg---ttttc--tcagGCTGTCGGCAAGGTTCTTCCAGAGCTTAATGGCAAGCTCACAGGAATGGCGTTCCGTGTCCCAACTCCAAACGTCTCAGTCGTCGACTTGACATGCCGAT

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|37851432|gb|BJ609440.1|BJ609440
EST:     CTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: CTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37848291|gb|BJ606299.1|BJ606299
EST:     TGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: TGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37842046|gb|BJ600054.1|BJ600054
EST:     ACGTGGTGCTGGACAGAACATCATTCNTAAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: ACGTGGTGCTGGACAGAACATCATTCCT-AGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208388689|gb|DC953451.1|DC953451
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67726344|gb|BJ976603.1|BJ976603
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37831794|gb|BJ589806.1|BJ589806
EST:     ACTGGAGCTGCAAAG                         GCCCGTGGNCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGC
genomic: ACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagG-CCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGC
EST: gi|208362874|gb|DC950824.1|DC950824
EST:     ACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: ACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67725319|gb|BJ975578.1|BJ975578
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208368330|gb|DC955527.1|DC955527
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208362848|gb|DC950798.1|DC950798
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67726181|gb|BJ976440.1|BJ976440
EST:     GCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208386536|gb|DC952745.1|DC952745
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208388805|gb|DC945381.1|DC945381
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208368880|gb|DC947438.1|DC947438
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37848398|gb|BJ606406.1|BJ606406
EST:     GACGTGGTGCTGGACAGAACATCATTCNTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208369277|gb|DC956068.1|DC956068
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67724340|gb|BJ974599.1|BJ974599
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67725809|gb|BJ976068.1|BJ976068
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37842054|gb|BJ600062.1|BJ600062
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37824920|gb|BJ582986.1|BJ582986
EST:     GACGTGGTGCTGGACAGAACGTCATTCNTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208360362|gb|DC950003.1|DC950003
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37827902|gb|BJ585914.1|BJ585914
EST:     TAGCTCAACTGGAGCTGCAAAG                         NCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: TAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67723795|gb|BJ974054.1|BJ974054
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67696731|gb|BJ956964.1|BJ956964
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67720154|gb|BJ970413.1|BJ970413
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37851983|gb|BJ609991.1|BJ609991
EST:     TAGCTCAACTGGAGCTGCAAAG                         GCCGTGGNCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: TAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67724127|gb|BJ974386.1|BJ974386
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67723853|gb|BJ974112.1|BJ974112
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|162271002|gb|FC447407.1|FC447407
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|67720688|gb|BJ970947.1|BJ970947
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208361174|gb|DC954280.1|DC954280
EST:     GACGTGGTGCTGGACAGAGCATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208361238|gb|DC957707.1|DC957707
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|37841608|gb|BJ599616.1|BJ599616
EST:     GACGTGGTGCTGGACAGANCATCATTCNTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
EST: gi|208373682|gb|DC952507.1|DC952507
EST:     GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAG                         GCCGTGGNCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT
genomic: GACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCT

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: 31 (upstream exon), 34 (downstream exon)
Score: 13

CCACCCAGAAGACTGTGGACGGCCCGTCTGGTAAGGACTGGCGTGGAGGACGTGGTGCTGGACAGAACATCATTCCTAGCTCAACTGGAGCTGCAAAGgtactgtgca ... tttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC
                                            ttttc  CT-rich tract
                                           attttcaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgtgcacgacagttgaatccttggcgagtgcactcatgaggctgctgtaagttatgtgagcggaattgtctgcactgattcaacattggcctgatcgtcgctttcctcgttcgggattttcaaacagGCCGTGGGCAAGGTGCTGCCAGAGCTGAATGGGAAGCTCACCGGTATGGCTTTCCGTGTCCCGACTCCCAATGTGTCTGTGGTGGATCTGACTGTGCGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA