Skip to another splice site:
1  
 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

ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt...

Basic information

species Oryza sativa
transcript LOC_Os05g44050.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G158887_T02 (Zea mays), 5'ss of exon 2
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt-----------
|||||||||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| ||||||||||| |||||||||||| ||||||||||||       ||||||    |   | ||   ||     || ||| || || || |||   || | |     | | || |||     || |||||||           
ATATGTGAACAAGAAGTTCAGCAATCAGTACAAGGCTACGATCGGCGCGGATTTCCTCACCAAGGAGGTGCAGTTCGAGGACAGGCTCTTCACTCTGCAAgtaagat----tggttcccctatccatatgctgtgcc---gtgctccgcgagtagttcggtttctttacgt----caacttagtactttattaattagtttgcgaatttat

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G811797_T01 (Zea mays), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaag-------cgaatttgtatgagcttgattagtt
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||||| |||||||||||   ||  || |||  ||  |    | |  | | |||     | || || ||| ||   || | |  ||        |  ||| |||    ||| |||||||
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGGGCGGATTTCCTCACCAAGGAGGTGCAGTTCGAGGACAGGCTCTTCACTCTGCAAgtaaga---ttggttaccctagccgtatgccgtgccgtgatc----tgggagtagttatgtttctttacgccaacttcagccccgattagtactttcttaattagtt

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA12G04830.1 (Glycine max), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt---
 |||||||| |||||||| || || ||||||||||| || ||||| ||||||||  | ||||| || || || || || |||||||| ||||| || || ||  |  |    |  |  ||   | |  ||| | || |    |    |  |     ||  |  | |   |         ||||||      | |     |   
GTATGTGAATAAGAAGTTTAGTAATCAGTACAAGGCAACCATTGGAGCGGATTTTTTAACCAAAGAAGTGCAATTTGAAGATAGGCTTTTCACCTTACAGgtttgtgagcagtgcttacctagatt--ttcctatcgtatgtgttatgttaccc-ctaattttgctggagaattattggtttgtaacctactaacctccttta

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA11G12630.3 (Glycine max), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt---
||||||||| |||||||| || || ||||||||||| || ||||| ||||||||  | ||||| || || || ||||| |||||||| ||||| || || ||     |    |  |  ||   | |  ||| | || |    ||   |  | ||  |   |    | | |          ||||    | |   || |     
ATATGTGAATAAGAAGTTTAGTAATCAGTACAAGGCAACCATTGGAGCGGATTTTTTAACCAAAGAAGTGCAATTCGAAGATAGGCTTTTCACCTTACAGgtttttgagcagtgcttacctagatt--ttcctatcttatgtgctatgttacta-ctgattttactgaagaattattgggttgtgcatgttgattttgcatga

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G18820.1 (Arabidopsis thaliana), 5'ss of exon 2
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaa-----gatatttcttttcccccgcactggttcttctcctca-----------tcgcgccgagattaattaggtccgttcatgggaagcgaattt---gtatgagcttgattagtt------------------------------------
 ||||| || || ||||||||||||||||||||||| || ||||| || || ||| | |||||||| || ||||| || ||| | || |||||||| || ||         |  ||  ||       ||||   | || |  |             | | ||  || | ||       | ||  || |||     |||   |  ||||||   | | ||                                    
GTATGTTAATAAAAAGTTCAGCAACCAGTACAAGGCAACCATTGGAGCCGACTTCTTGACCAAGGAAGTACAGTTTGAAGATCGACTTTTCACTTTACAGgttcctactagtgctttattagttagtcactcaatattttttttgaagtaagatgcttgtgctcagctcaacctttcacatttgtgtgaattacctttcttgcttgagctcactcacttgttcctgtctttactttgtcaatgtgtttattacag

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G49300.1 (Arabidopsis thaliana), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatat-----ttcttttcccccgcactggttcttctcc---tcatcgc-gccgagattaattaggtccgttcatgg--gaagcgaatttgtatgagcttgattagtt
|||||| || |||||||||||||||||||| ||||| || ||||| || |||||| | || ||||| ||||| || || ||  |||| |||||||| || ||  | | |       ||||  |     ||   || |  |     | | ||| |  |  || | ||||   | ||  |||  || |  || ||| |  |            
ATATGTTAATAAGAAGTTCAGCAACCAGTATAAGGCAACTATTGGGGCTGATTTCTTGACTAAGGAAGTTCAATTTGAAGACCGGCTTTTCACTTTACAGgtttgttgtggcagcgctttatcagtaaacctcttttattttattttagcgcagttggtataagttagactccttagtggcagaggaaaacttggaataa-----------

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv03s0063g02420.t01 (Vitis vinifera), 5'ss of exon 4
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgtt--catgggaagcgaatttgtatgagcttgattagtt-
||||||||| |||||||| ||||| || |||||||| || || || || |||||  | || ||||| || |||||||| ||||||||||||||||| || || ||  ||   |||         || | ||  ||    |   |    |   | |||   | ||    | || |   | || ||  ||| |||||||| |   
ATATGTGAATAAGAAGTTTAGCAATCAATACAAGGCAACTATCGGAGCTGATTTTTTGACGAAGGAAGTGCAGTTCGAAGATAGGCTCTTCACTTTACAGgttagtgataattttgagttt---cttgctcaactggcaaaaacttgtaagcttattgtatgcgggggcgtgtgttccaaaattcgatgtgcttgatttggca

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S398_18V6.1 (Physcomitrella patens), 5'ss of exon 2
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcg-ccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt-
 ||||| ||||||||||||||||||||||| ||||| |||||||| || |||||  | || || || || ||  |||| || |||||  ||||  |||| || ||  || ||| |   |         ||||| ||   ||   | || ||  | | | | |||  ||    ||  ||   | |  |||  |  |||  |  
GTATGTTAACAAGAAGTTCAGCAACCAGTATAAGGCCACGATTGGAGCAGATTTTTTGACAAAAGAAGTGCAAGTCGAAGACAGGCTTGTCACAATGCAGgtcagtaatctctgtgtgctgatctacattcttttctgaatgttggcccagtgtgacttgttcccatcccctgagccgg--tagactgatatgaattcatgg

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S119_112V6.1 (Physcomitrella patens), 5'ss of exon 2
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatt-tgtatgagcttgattagtt-
|||||| ||||||||||| ||||||||||| ||||| |||||||| || || ||  | || || ||||| ||  |||| || || ||  | ||  |||| ||  |  | | |      |    ||||  |    | |         | |  || ||   ||  ||  ||||    |    | |||    | | ||| | || 
ATATGTTAACAAGAAGTTTAGCAACCAGTATAAGGCCACGATTGGAGCAGACTTTTTGACAAAAGAGGTGCAAGTCGAAGACAGACTTGTGACAATGCAGgtccgtaactcccgcatacgatgactgtcttaagtacgttggttttcaaagttgatgtagt--gtgaatggcttccattctctgtgctggttggatgaattg

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ15497 (Selaginella moellendorffii), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcat-cgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt
||||||||| |||||||| |||||||||||||||||||| ||||| || ||||| |||||||||||||||||  | ||||| |||||  | ||  |||| ||  |   |    ||| | ||  |    ||  | || || | ||    | ||||  || | |   | ||                                
ATATGTGAATAAGAAGTTTAGCAACCAGTACAAGGCTACTATTGGAGCCGATTTTCTCACCAAGGAGGTTCAAGTGGAGGACAGGCTAGTGACGATGCAGgtgggtcgtgatctttgctccaaaaaaatttctttcttcttacgaattgggatt--ttggttt--tccag-------------------------------

upper sequence: LOC_Os05g44050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ24755 (Selaginella moellendorffii), 5'ss of exon 3
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt
||||||||| |||||||| |||||||||||||||||||| ||||| || ||||| ||||||||||| |||||  | ||||| |||||  | ||  |||| ||  |   |    ||| | ||  |     |  | || || ||   |  |     |||  |    | ||                                
ATATGTGAATAAGAAGTTTAGCAACCAGTACAAGGCTACTATTGGAGCCGATTTTCTCACCAAGGAAGTTCAAGTGGAGGACAGGCTAGTGACGATGCAGgtgggtcgtgatctttgctccaaaaaaaattctttcttcttcttacgaattgggattttggttttccag-------------------------------

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|58692179|gb|CK080866.1|CK080866
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33828261|gb|CF339947.1|CF339947
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33826839|gb|CF339227.1|CF339227
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33826336|gb|CF338976.1|CF338976
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|2431274|gb|C73694.1|C73694
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33828660|gb|CF340149.1|CF340149
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|58600073|gb|CK010601.1|CK010601
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|29637926|gb|CB642935.1|CB642935
EST:     AGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: AGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33829659|gb|CF340652.1|CF340652
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33828747|gb|CF340193.1|CF340193
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33828901|gb|CF340272.1|CF340272
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|58604052|gb|CK014580.1|CK014580
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|88356614|gb|CI617697.1|CI617697
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|58597690|gb|CK008218.1|CK008218
EST:     AGTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33826310|gb|CF338961.1|CF338961
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|58657261|gb|CK045941.1|CK045941
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|29684730|gb|CB681005.1|CB681005
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|58692996|gb|CK081683.1|CK081683
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33825519|gb|CF338567.1|CF338567
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|33827051|gb|CF339331.1|CF339331
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
EST: gi|88393468|gb|CI619760.1|CI619760
EST:     ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAA                         ATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC
genomic: ATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTC

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), 74 (downstream exon)
Score: 99

ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatt ... tttgttgcagATATGGGATACTGCTGGCCAGGAAAGGTTTCAGAGTCTTGGTGTTGCATTCTACCGTGGAGCAGATTGCTGTGTTCTAGTTTATGATGTCAATTCTATGA




<











<


<









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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATGTGAACAAGAAGTTCAGCAACCAGTACAAGGCTACGATTGGCGCGGATTTCCTCACCAAGGAGGTTCAGTTCGAGGATAGGCTCTTCACTTTGCAAgtaagatatttcttttcccccgcactggttcttctcctcatcgcgccgagattaattaggtccgttcatgggaagcgaatttgtatgagcttgattagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccccgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgcgccg