Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaattttttttttatcatgaatacctttagttttcactttagttatggtggtgcaaccttggtaacatgattcatggattttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os06g04270.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G033208_T01 (Zea mays), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaattttttttttatcatgaata-----cctttagttttcactttagttatg------------gtggtgcaaccttggtaacatgattcatggattttgtgcag
||||||||||||| || ||||| |||||| |||| ||||||||||||||||||||||| || ||||||||||| ||||| ||||| || || |||||||||||||  || |  || |   ||       | | | | ||| | |  |||  ||            ||||  ||   ||||||||||| ||| |||||  ||| |||
TTGGTCAGGGTATCGCCAATGCCGTTGGGTTGGCACTTGCTGAGAAGCACCTGGCTGCCCGCTTCAACAAGCCTGACAGTGAGATCGTCGACCACTACACgtaatacttctaataacgccaacgtgcagcgtctcgcttttattacagtcttgcttttagtctgtgtggcacagttttggtaacatgtttcgtggatcctgtacag

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaattttttttttatcatgaatacctttagttttcactttagttatggtggtgcaaccttggtaacatgattcatggattttgtgcag
|||||||||| ||||| ||||| |||||  |||||||||| ||||||||| |||||||  | | ||||||||| ||||  ||||||||||| || |||||||||   |   |  |||||  | | |||        ||||||||| |  |||||     ||| |||     ||  |    ||| |||||
TTGGTCAGGGGATTGCCAATGCTGTTGGTTTGGCCCTTGCAGAGAAGCACTTGGCTGCAAGATACAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaaaaataactaaatcatacacaacttgcaa---gactttagttgt--tggtgt---tttgctaatggcgtttgt----tttatgcag

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA20G38720.1 (Glycine max), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgta----attttttttttatcatgaatacctttagttttcactttagt-tatggtggtgcaaccttggtaacatgattcatggattttgtgcag---------------------
|||||||||| ||||| ||||| |||||| | || || |||||||| ||| ||||||| || || |||||||| ||||  ||||||||||| || ||||||||    |  |   | || |  ||  | | ||   | | || | |  | ||||    |||||     |     | |    ||    ||||                         
TTGGTCAGGGCATTGCCAATGCTGTTGGGTTAGCACTAGCTGAGAAACACTTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtag

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA10G43990.1 (Glycine max), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgta----attttttttttatcatgaatacctttagttttcactttagttatggtggtgcaaccttggtaacatgattcatggattttgtgcag---------------------
|||||||||| ||||| ||||| |||||  | || || |||||||||||| ||||||| || || |||||||| ||||  ||||||||||| || ||||||||    | ||   | || |  ||    | ||   | | || | |  |    ||  |||||     |     | |  ||||    ||||                         
TTGGTCAGGGCATTGCCAATGCTGTTGGATTAGCACTAGCTGAGAAGCACTTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaggataattgcatcttgttttgttctcattctctctacattgtgatctacgtcttgcaattcctggtgttttacccatgagaattgtttttttctttgttttactcttgtag

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt--ttttatcatgaatacctttagttttcacttt----agttatggtggtgcaaccttggtaacatgattcatggattttgtgcag
|||| || |||||||||||||| |||||  | || ||||| ||||||||  |||||||| | || ||||| || ||||  ||||||||||| ||||||||||||  ||||   |   |||     || |||| | ||  ||||      || || || || || ||   |    ||  | |              
TTGGACAAGGTATTGCAAATGCTGTTGGTTTAGCTCTTGCGGAGAAGCATTTGGCTGCTAGATTTAACAAACCTGACAATGAGATTGTTGACCACTACACgtaagattttgactccttcaacggcacttttattgttatctttcttggattgtgatgttgtaaactgactgctttggattag-------------

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaattttttttttatcatgaatacctttagttttc-actttagt---tatggtggtgcaaccttggtaacatgattcatggattttgtgcag------
|||||||||||||||| ||||| |||||  |||||  ||  ||||||||  |||||||  | |||||||| || ||||  |||||||| || |||||||||||| |  |  ||  |  ||      ||  |||| | |  | | |   ||   |  |    ||||  |    || ||  | ||| |||   |       
TTGGTCAGGGTATTGCCAATGCTGTTGGTTTGGCCGCTGTGGAGAAGCATTTGGCTGCAAGATTCAACAAACCTGACAATGAGATTGTCGACCACTACACgtaaatcctcattcttggtgttcttgttctgtttcctatctcaatgtatacaatcatttggccttacttgtttggttttttgatattgattattcttag

upper sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv15s0048g00370.t01 (Vitis vinifera), 5'ss of exon 3
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaa----tttttt---ttttatcatgaatacctttagttttcactttagtt----atggtggtgcaaccttg-gtaacatgattcatggattttgtgcag--------
|||||||||||||||| ||||| |||||  |||| ||||| |||| |||| |||||||||| |||||||| || ||||  ||||||||||||||||||||||||     || |    | || |  ||  |  |  |  | || |  |   |     |||   ||     |||   |    ||  |||| | | ||| |||         
TTGGTCAGGGTATTGCCAATGCTGTTGGCTTGGCTCTTGCGGAGAGGCACTTGGCTGCTCGATTCAACAAACCAGACAATGAGATTGTTGATCACTACACgtaaacagcttatcaaatgttgttgtgtttttcagtgctctttagatagatctgaaatgtacgtatgctcttatattgtttggctcattggtattg-gcatttccttag

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|29628849|gb|CB633860.1|CB633860
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29616150|gb|CB621162.1|CB621162
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58665775|gb|CK054461.1|CK054461
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58605211|gb|CK033244.1|CK033244
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTGGGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58694852|gb|CK083539.1|CK083539
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29618033|gb|CB623045.1|CB623045
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29616475|gb|CB621487.1|CB621487
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|38471630|gb|CF955761.1|CF955761
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|44679309|gb|CR292743.1|CR292743
EST:     CGACAGCGANGATTG-TGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CGACAGCGA-GATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58611062|gb|CK038774.1|CK038774
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29658985|gb|CB655260.1|CB655260
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|88316981|gb|CI625618.1|CI625618
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58693155|gb|CK081842.1|CK081842
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58607338|gb|CK035371.1|CK035371
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCGATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58605541|gb|CK033574.1|CK033574
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29624781|gb|CB629792.1|CB629792
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|44679342|gb|CR292776.1|CR292776
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29621963|gb|CB626974.1|CB626974
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29627380|gb|CB632391.1|CB632391
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58610004|gb|CK038037.1|CK038037
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29656978|gb|CB653253.1|CB653253
EST:     GTTTC-ACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: GTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|38469502|gb|CF953633.1|CF953633
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29614101|gb|CB619114.1|CB619114
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29616061|gb|CB621073.1|CB621073
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|300215739|gb|HO088365.1|HO088365
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29658871|gb|CB655146.1|CB655146
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29658330|gb|CB654605.1|CB654605
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58674058|gb|CK062744.1|CK062744
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|29614136|gb|CB619149.1|CB619149
EST:     GCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: GCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
EST: gi|58670081|gb|CK058767.1|CK058767
EST:     CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACAC                         CTACTGTATCTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC
genomic: CTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGC

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: 117

TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaatttttt ... ttttgtgcagCTACTGTATTTTGGGAGATGGGTGCCAGATGGAGGGTATCTCCAATGAAGCTTGCTCGTTGGCTGGCCATTGGGGTCTTGGCAAGCTGATTGCATTCTAT




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGTCAGGGTATTGCAAATGCAGTTGGGCTGGCCCTTGCTGAGAAGCACCTGGCTGCTCGTTTCAACAAGCCCGACAGCGAGATTGTTGATCACTACACgtaattttttttttatcatgaatacctttagttttcactttagttatggtggtgcaaccttggtaacatgattcatggattttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT