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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattcccctatttctgtgcttacgtaatataaataacatgt...

Basic information

species Oryza sativa
transcript LOC_Os01g59990.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA10G07680.1 (Glycine max), 5'ss of exon 3
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattcccctatttctgtgcttacgt-aatataaataacatgt----
||| |||||||| ||||||||||| ||| | || ||||||||| |  |||||||  | ||||| |||||||| || |||||||| ||||| |||||||||||| |  ||||   | | ||   || | | || |  |          | |||  |    || |    ||  || |   | || |    || ||| |         
TTTCCTGTTTGCTAACTCGAAATGTAAGAGGTATTTCCACAACAGGTTGAAGCCATCAAAGCTCACCTGGACTGCAATGTACAGAAAGCAACACAAGAAGgtg-attatttaattgaaatgtttttaaagat-gaaacaacacatataggcatcc--tgaacttgt-taaatcagaattaacattggcatcaatgattctggtta

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA03G34700.1 (Glycine max), 5'ss of exon 3
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattcccctatttctgtgcttacgtaatataaataacatgt-------
||| |||||||||||||| ||||| ||||| || ||||||||||||||||||||  | ||||| |||||||| ||||||||||| ||||| ||||| ||||||  |   ||| ||   | |  || | | ||   |   |  || |     ||   | ||||     |   | ||||||||  || | ||    |||| |       
TTTCCTGTTTGCCAACTCAAAATGTAAGCGGTATTTCCACAACCGCCTGAAGCCCTCAAAGCTCACCTGGACTGCTATGTACAGAAAGCAACACAAAAAGgtg--attatttaattgtaatatttgaaagatgaac---caatgactcaataagtgaaaaatattattgcct-tgtgcttagttagt-tattctacatataaacagg

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G43870.1 (Glycine max), 5'ss of exon 1
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattc---ccctatttctgtgcttacgtaatataaataacatgt--------------------------------------------------------------------------------------------
||| |||||||| ||||| ||||| ||| | || |||||||| |||||||||||| | ||||| |||||||| ||  ||||||| ||||| ||||| ||||||  |   ||| ||   |||  || | | || |  |   |   || ||| | | || | |||    || | |   ||    | |   ||||||| |   | |                                                                                            
TTTCCTGTTTGCAAACTCAAAATGTAAGAGGTATTTCCACAATCGCCTGAAGCCTTCAAAGCTCACCTGGACTGCAGTGTACAGAAAGCAACACAAAAAGgtg--attattttattgtattattttaaagat-gaaacaataaaccaatg-agtgaaaatattgttgccttgtgcttggttattctacatataaacaggttatgatgctaagtaattttgcattggttgcatgattttaattttgattgtttgtgtgcatgtgatatctaggacattgctcaataagttgtgaag

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA19G37370.2 (Glycine max), 5'ss of exon 3
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaatt----cccctatttctgtgcttacgtaatataaataacatgt--------------------------------------------------------------------
||| |||||||| ||||| ||||| ||| | || |||||||| |||||||||||| | ||||| |||||||| || |||||||| ||||| ||||| ||||||  |   ||| ||   |||  || | | || |  |   |   || ||| | | || | |||    ||  ||  |  ||  ||    | |||||| |   | |                                                                    
TTTCCTGTTTGCAAACTCAAAATGTAAGAGGTATTTCCACAATCGCCTGAAGCCTTCAAAGCTCACCTGGACTGCAATGTACAGAAAGCAACACAAAAAGgtg--attatttaattgtattattttaaagat-gaaacaataaaccaatg-agtgaaaatattgttgcctttaacttggttattctaca-tataaacaggttatggtgctaagtaattctgcaatggttgcatgatttgaattttgattgtttgtgtgcatgtgatatctag

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv16s0100g00650.t01 (Vitis vinifera), 5'ss of exon 2
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtg-caacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattcccctatttctgtgcttacgtaatataaataacatgt----------------------------------------
|||||| |||||||| || ||||||||| | |||||||||||||| || |||||  | |||||||| |||||||| |||||||| |||||||||||||||||    | ||||| |     ||     ||  | |  |||| | ||||  |  | |              ||||       |||   || |   |   | ||                                        
TTTTCTCTTTGCCAATTCTAAATGCAAGAGGTACTTCCACAACCGGCTTAAGCCATCGAAGCTTACATGGACAGCCATGTACAGAAAGCAGCACAAGAAGgtaatcaaattttaaaattgtttggctatcaact--cattttttgcctttttattgtgggtgaaagtgcattttcacttctaccctatttgtttgggaagtggctaattcagctgattcttttttctgctctcactttcag

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv13s0074g00140.t01 (Vitis vinifera), 5'ss of exon 3
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttc--atcaga-ttcattcatatattggcattctctgccca--tgca----atcaacaaattcccctatttctgtgcttacgtaatataaataacatgt--
 ||||| |||||||| || ||||||||| | ||||| |||||||| || |||||| | |||||||||||||| |||||||| || ||||| || ||||||||| ||  | ||   || | | |||||||||  |   |  | || |   ||  || |     |      |     | | || | | ||| | |  ||||   |||      
ATTTCTATTTGCCAATTCAAAATGCAAGAGATACTTTCACAACCGACTTAAGCCTTCAAAGCTTACCTGGACGGCTATGTATAGAAAGCAACATAAGAAGgtggaatgtcttttaatgatacttcattcattgaaaagtttgctatatgcagctgtatcatgtggttggacattacaaattttcttctttcatc-tatatgcaactcacag

upper sequence: LOC_Os01g59990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv08s0007g04210.t01 (Vitis vinifera), 5'ss of exon 3
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt---ttcatcagattcattcatatattggcattctctgcccatgca-atcaacaaattcccctatttctgtgcttacgtaatataaataacatgt
 ||||| |||||||| || ||||||||| | |||||||||||||| ||||||||  | ||||||||||||||||| |||||||||||||| || || |||||   || |    | |     ||||| |  ||| | |||||     |    ||    |      |||  |  ||| | |   ||  |  | | ||   ||    
GTTTCTATTTGCCAATTCAAAATGCAAGAGGTACTTCCACAACCGGCTGAAGCCATCAAAGCTTACCTGGACAGCCATGTACAGGAAGCAACATAAAAAGgtagcacttgaaataccatgtattcaattttatgt-ggcatatgtcggtactgtgtgtgtgtgcattttcagattacaggatttttgacaaacaagctact---

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|15847107|gb|BI795383.1|BI795383
EST:     CCTGGACAGCTATGTACAGGAAGCAGCACAAGAA-                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCATCCAAGAA-CC
genomic: CCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCA-CCAAGAAGCC
EST: gi|30228671|gb|CB966561.1|CB966561
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|38476375|gb|CF960508.1|CF960508
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88237518|gb|CI237367.1|CI237367
EST:     TACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: TACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88207955|gb|CI207804.1|CI207804
EST:     CAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: CAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88240764|gb|CI239926.1|CI239926
EST:     GTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: GTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88576762|gb|CI673287.1|CI673287
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88328544|gb|CI676754.1|CI676754
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|218481886|gb|FG948632.1|FG948632
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|33806682|gb|CF329222.1|CF329222
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|14981286|gb|BI305964.1|BI305964
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88404907|gb|CI685341.1|CI685341
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88210649|gb|CI210498.1|CI210498
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88237430|gb|CI237279.1|CI237279
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|87018104|gb|CI275918.1|CI275918
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|89193914|gb|CI018232.1|CI018232
EST:     AGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|163922730|gb|EG712201.1|EG712201
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|87029957|gb|CI267970.1|CI267970
EST:     CTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: CTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88209988|gb|CI209837.1|CI209837
EST:     CCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: CCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|33690835|gb|CF319074.1|CF319074
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|86594449|gb|CI253348.1|CI253348
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|163928530|gb|EG711415.1|EG711415
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTG
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTG
EST: gi|58602306|gb|CK012834.1|CK012834
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|86854019|gb|CI252010.1|CI252010
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|58681869|gb|CK070556.1|CK070556
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|58593374|gb|CF991682.1|CF991682
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCAGCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|58591772|gb|CF990080.1|CF990080
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|163927525|gb|EG709957.1|EG709957
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|38480261|gb|CF964350.1|CF964350
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|88238659|gb|CI238508.1|CI238508
EST:     AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: AGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
EST: gi|157650326|gb|EX449960.1|EX449960
EST:     GTACAGGAAGCAGCACAAGAAG                         GACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA
genomic: GTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCA

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: 75 (upstream exon), 75 (downstream exon)
Score: 172

TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacatt ... tgcactgtagGACATTCATGCTGAAGCTGTCAAGAAGAGGCGTCGCACCACCAAGAAGCCATACTCACGGTCAATTGTTGGTGCTACACTGGAAGTTATCCAAAAGAAGA




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTCTGTTTGCCAACTCGAAATGCAAGCGCTACTTCCACAACCGCCTGAAGCCTGCCAAGCTTACCTGGACAGCTATGTACAGGAAGCAGCACAAGAAGgtgcaacattttcatcagattcattcatatattggcattctctgcccatgcaatcaacaaattcccctatttctgtgcttacgtaatataaataacatgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG