Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggagtataacattttttttactgtaagcattgtttgaattgcttggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA

Basic information

species Oryza sativa
transcript LOC_Os07g46750.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G439201_T01 (Zea mays), 3'ss of exon 1
gggagtataacattttttttactgtaagcattgtttgaattgcttggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGC---TTCCAAGGCCTCTTCAA------------
                                                                               ||   ||||    ||| ||||      | ||| || ||||||||||| ||||||||||||||||| || ||||| |||||||| ||||| ||||||||||| ||   | ||||||||||||| |            
-------------------------------------------------------------------------------tctgcttttaattctcgacag------gctgaggacgatgatgaccttgatctttttggtgatgaaactgaggaggacaagaaggcagctgatgagcgtgccgccgCTGCCAAGGCCTCTTCTAAAAAGAAAGAAA

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G439201_T04 (Zea mays), 3'ss of exon 2
gggagtataacattttttttactgtaagcattgtttgaattgcttggtgt-ttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGA-TGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGC---TTCCAAGGCCTCTTCAA---
        ||| | ||| |   |||  | |||  ||| || ||   || |  |   | |   ||  |    |||||     |  | ||  ||  |  |       | |  ||| || ||||||||||| ||||||||||||||||| || ||||| |||||||| ||||| ||||||||||| ||   | ||||||||||||| |   
------tcaacctatttgtcgttgtgtg-attaattgcat-gccaagtatgctttatatcaatgcttcttttttgttgtcactgtcttctgcttttaattctcgacagGCTGAGGACGATGATGACCTTGATCTTTTTGGTGATGAAACTGAGGAGGACAAGAAGGCAGCTGATGAGCGTGCCGCCGCTGCCAAGGCCTCTTCTAAAA

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA02G44460.2 (Glycine max), 3'ss of exon 3
---gggagtataacattttttttactgtaag-cattgtttgaattgcttggtgtttcccttttg--ctgacttagct--ttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA
   |     |||  ||   |   | ||||||  ||| ||  | |||    |    | |    ||  || | | | ||  ||  || ||     ||||     || |    |||||| |||||||||||||| || ||||| |||||||||||||| |||||||| ||||| |||||||| ||  | |  ||| | ||           
tttgacttgatagtatacatga-agtgtaagatattattgcagttgtactgaagctgctaagtgaactaattcaactaatttgatcattgggatttgttagGCTGCCAC-TGCTGAAGAAGATGATGATGATCTTGATCTCTTTGGTGATGAGACAGAGGAAGATAAGAAGGCAGCAGAGGAAAGGGAGGCTGCTAAAAAGC------

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA14G04350.1 (Glycine max), 3'ss of exon 3
-----------gggagtataacattttttttactgtaa-gcattgtttgaattgcttggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA
               |||  | ||| || |   ||||  | |     | | |    |  |    |   |||| | | |  | ||||| | |    || |  | |  | ||    |||||| |||||||||||||| || ||||| |||||||||||||| ||||| || ||||| |||||||| ||  | |  ||| | ||           
tacttattgtgaaatgtaagatattattgtggttgtactgaagctgctaagtgaactaattcaactaatttgatcattgggatttgtttgaat--ttgtcagGCTGCCAC----TGCTGAAGAAGATGATGATGATCTTGATCTCTTTGGTGATGAGACAGAGGAGGATAAGAAGGCAGCAGAGGAAAGGGAGGCTGCTAAAAAGC------

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA13G04050.1 (Glycine max), 3'ss of exon 3
----gggagtataacattttttttactg-taagcattgtttg--aattgcttggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA
     |   ||  || |||   |   ||   ||  || || |  |||| | ||  || | |   | | |   |||     || | ||     |||| |    | |    ||||| |||||||||||||||||| ||||| ||||| |||||||| ||||||||||| || |||||||| ||  | |  ||| | |||   |      
ttgctgtgttagtacttttacctaggtggctaggcttattagctaattacctgaagtcttcaactagtttggttattggggttttatttgaatttgtcagGATGCTTC-TGCTGCTGAAGATGATGATGACCTTGATCTCTTTGGCGATGAGACTGAGGAAGACAAAAAGGCAGCAGAGGAAAGGGAGGCTGCTAAGAAGT------

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT5G19510.1 (Arabidopsis thaliana), 3'ss of exon 3
----------gggagtataacattttttttactgtaagcattgtttgaattgcttggtgtttcccttt-tgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA
              || |   |      ||  |   ||  | ||||| | || |  |||| |   | | || | ||      ||| |||||   |     | |  || |||  ||| | ||| |||||||||||| ||||||| |||||||| |||||||| ||||| |||||||| ||||| ||| | |  ||| | |||          
ggatcacgagctatgtttggtaggggaattgattggagtttggtttggaatgttgtgtgtgtgtgtgtgtgtttacgctatcttgcataatt-gtcaacagGCACCTGCAGC-TGCAGCTGATGATGATGATGACATGGATCTCTTTGGTGACGAGACCGAAGAAGAAAAGAAAGCTGCAGAGGAGAGGGAGGCTGCTAAGA---------

upper sequence: LOC_Os07g46750.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv06s0009g02410.t01 (Vitis vinifera), 3'ss of exon 3
gggagtataacattttttttactgtaagcattgtttgaattgcttggtgtttcccttttgctgact----tagctttgtataatccatttttggccct-ctacagGA----TGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCC---AAGGCCTCTTCAA
    |||||   ||| | |   | |  | |||   | | |  |    || ||   |||  || | |    |   |    ||  | | | |||||   | |||         |||||  || ||||| |||||||| ||||| |||||||||||||| ||||| || ||||| |||||||| ||| | |  || ||    ||||         
---ggtatacattttgtgtctgtatttgaatttcctaagtgtccatatgctttaatttccctcagtcttatgaatactcatttttcctctttggatttactagGCTGCTCCTGCTGGAGATGATGACGATGACCTTGATCTCTTTGGTGATGAGACAGAGGAGGAGAAGAAGGCAGCAGAAGAGAGGGAGGCATCTGTTAAGG---------

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|88394641|gb|CI622515.1|CI622515
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTG
EST: gi|32947944|gb|BP184516.1|BP184516
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|29630673|gb|CB635682.1|CB635682
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|8856367|gb|AU093685.1|AU093685
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAG
EST: gi|88352325|gb|CI615579.1|CI615579
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTT
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTT
EST: gi|33815022|gb|CF333375.1|CF333375
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|3763603|gb|AU030355.1|AU030355
EST:     TGGAGGAGGTGCGGCATCGTCTGCTGCAAGC-G-TGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: TGGAGGAGGTGCGGCATCGTCTGCTGC-AGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|218498349|gb|FG945078.1|FG945078
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88732403|gb|CI755580.1|CI755580
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33658137|gb|CF280751.1|CF280751
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88467252|gb|CI696620.1|CI696620
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTG
EST: gi|88414898|gb|CI601730.1|CI601730
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGAC-TGGAT-TTTTTGGGTGATGA
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGG-TGATGA
EST: gi|88735428|gb|CI758936.1|CI758936
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTCGGTGATGAGAC
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGAC
EST: gi|87010701|gb|CI312393.1|CI312393
EST:     AGAAGGTNCGGCATCGTCTTGNTGCAAGCGGGNTGNCGCCAGCTGTTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTTGGTGATGAGACCGA
genomic: AGGAGGTGCGGCATCGTC-TGCTGC-AGC-GGCTG-CGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATC-TTTTTGGTGATGAGACCGA
EST: gi|88424640|gb|CI606439.1|CI606439
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33818163|gb|CF334910.1|CF334910
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|86828627|gb|CI278704.1|CI278704
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|25800166|gb|CA756127.1|CA756127
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|55432170|gb|CV729104.1|CV729104
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88433766|gb|CI582088.1|CI582088
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33682514|gb|CF310753.1|CF310753
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33660994|gb|CF291961.1|CF291961
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|32948490|gb|BP185062.1|BP185062
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|66922247|gb|CX109095.1|CX109095
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33820192|gb|CF335910.1|CF335910
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|29688035|gb|CB684310.1|CB684310
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|12405033|gb|AU166634.1|AU166634
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATG
EST: gi|33812113|gb|CF331946.1|CF331946
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88369103|gb|CI678825.1|CI678825
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCT
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCT
EST: gi|33655380|gb|CF277994.1|CF277994
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33683751|gb|CF311990.1|CF311990
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88425472|gb|CI567192.1|CI567192
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGGGCCAGCTGTTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|55437080|gb|CV731737.1|CV731737
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|218499355|gb|FG943604.1|FG943604
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|29688034|gb|CB684309.1|CB684309
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|86600171|gb|CI251541.1|CI251541
EST:     AGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: AGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88694732|gb|CI738770.1|CI738770
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|8527747|gb|AU092562.1|AU092562
EST:     GAGGAGGTCCCGGCATCGTCTGCTGCANGC-G-TGCCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGNCCGAG
genomic: GAGGAGGT-GCGGCATCGTCTGCTGCA-GCGGCTG-CGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|32948096|gb|BP184668.1|BP184668
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33693681|gb|CF321920.1|CF321920
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|8856368|gb|AU093686.1|AU093686
EST:     CGTCTGCTGCAAGC-G-TGCGCCAGCTGCTAAG                         GATTCCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGA
genomic: CGTCTGCTGC-AGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGA-TGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGA
EST: gi|88367163|gb|CI563927.1|CI563927
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|55439427|gb|CV733021.1|CV733021
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88347575|gb|CI654408.1|CI654408
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTT
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTT
EST: gi|14574827|gb|AU197342.1|AU197342
EST:     AGGT-CGGCATCGTCTGCTGCAGCGGGTTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: AGGTGCGGCATCGTCTGCTGCAGC-GGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|11172970|gb|AU164548.1|AU164548
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33680740|gb|CF308979.1|CF308979
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|11172972|gb|AU164549.1|AU164549
EST:     CGGCTGCCG-CAGCTGCTAAG                         GATGCTGATG-AGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CGGCTG-CGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|10931171|gb|AU161445.1|AU161445
EST:     TGCGCCAGCTGCTAAG                         GATGNTGATGAAGATGATGATGCCCTGGATCCTTTTTGGGTGATGAGACCG
genomic: TGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGAT-CTTTTT-GGTGATGAGACCG
EST: gi|33819750|gb|CF335693.1|CF335693
EST:     CTGGAGGAGGTGCGGCATCGTCTGTTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|14574826|gb|AU197341.1|AU197341
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|8857739|gb|AU095057.1|AU095057
EST:     CTGGAAGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCA-CTGCTAAN                         GATGCTGATGAAGATGATGATGACCTGGATCTTT
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTT
EST: gi|33670587|gb|CF298826.1|CF298826
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGNATCTTTTTGGTGATGGGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|14191869|gb|AU184080.1|AU184080
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|3763605|gb|AU030357.1|AU030357
EST:     TGGA-GAGGTGCGGCATCGTCTGCTGCAAGC-G-TGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: TGGAGGAGGTGCGGCATCGTCTGCTGC-AGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88729157|gb|CI752667.1|CI752667
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGA
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGA
EST: gi|3763390|gb|AU030142.1|AU030142
EST:     TGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCA-CTNCTAAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGA
genomic: TGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCT-AAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGA
EST: gi|13806448|gb|AU181523.1|AU181523
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88570812|gb|CI662185.1|CI662185
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGA
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGA
EST: gi|55435744|gb|CV731005.1|CV731005
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|33680383|gb|CF308622.1|CF308622
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
EST: gi|88401508|gb|CI586064.1|CI586064
EST:     CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAG                         GATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG
genomic: CTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAG

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), 75 (downstream exon)
Score: 59

GTTCCCTGGCAAGGCAGTTGGAGTGAATCTGCCTGGAGGAGGTGCGGCATCGTCTGCTGCAGCGGCTGCGCCAGCTGCTAAGgtttgctcct ... ccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA
             tgctgac  putative branch site (score: 59)
                                             ccctctac  putative PPT
                             tataatccattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggagtataacattttttttactgtaagcattgtttgaattgcttggtgtttcccttttgctgacttagctttgtataatccatttttggccctctacagGATGCTGATGAAGATGATGATGACCTGGATCTTTTTGGTGATGAGACCGAGGAAGACAAGAAAGCAGCAGATGAGCGTGCAGCTTCCAAGGCCTCTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - -tttactg
- - - - - - - - - - - - - - - -tgtttga
- - - - - - - - - - - - - - - - - - - -ttgcttg