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

gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG

Basic information

species Physcomitrella patens
transcript PP1S4_277V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 3'ss of exon 4
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgcc--ctcatggctgtataattgcaggctttgaattggcttgttttgattctgtga--ctaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG-
                                                                 ||| | |  |||   ||||| | | |||   || | |     | |||  | ||  | | |     |  || |   | |  ||  | ||  | ||  |||||||||| || || |||||||||||||| ||||| || ||||||| |||||||||||||||||| || |||||  | || ||||    | |||| |     | 
-----------------------------------------------------------------tttataatgtgctcgctcattgat-tatgtctggaagaaacaatttgcatggtcctcacttccacattcttaccgtggtgtgctgttttatgatttcacagGTGACACATGCTGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAGGAAGGTGTGCCGGAGGGTCTTTACATGTGATGTGCTCACT-GGTCGC

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 5
------------------------------gtgagcttgccatttctttgtattct----tttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG-
                                  |||  | | | || |  ||  |     ||    | ||  | | |||   || |   || |   | |||   || ||| ||||   |   ||| ||||| |   || |     |||||    |||| |   ||   |||  ||||    |  |  |||   ||||||| || || || ||||||||||| || || || || |||| ||||||||||||||||||||| || ||| | |||||||   | |  ||  ||     
gtaactcagctttgttttctcaaccagactccttgctctctagtactgttaatgttaaaactttcgagcatactaagtgccaatcctttcagatctgagtttg--agctgcgctcagaac---atatttgcatggaatgcaagtctttgttgcacttctcttttta--catttgctgtt--cttctgttgctttagGTGACACATGCCGATTTCAAGAAGGCCAAAGAGAAGGTCATGTTCAAGAAGAAGGAAGGTGTACCGGAAGGGCTTTATATGTGAGACATCCA-CCACTCAT

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAA-GTG-----------------------------------
                                                                                                 |         | |   || || | ||||| || |   |  ||  | ||  ||    |  || |||||||| || || || ||||||||||| ||||| || |||||||||||||||||||||||||| || || ||  | || ||||||   |   | |||   ||                                   
-------------------------------------------------------------------------------------------------atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacc-caggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G095593_T01 (Zea mays), 3'ss of exon 4
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaatt-ggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG
                                                            | || ||   |||     ||      ||| || ||| |   |   | || |   || || | ||||| || |   |  ||  | ||  ||    |  || |||||||| || || || ||||||||||| ||||| || |||||||||||||||||||||||||| || || ||  | || ||||||   |   | |||    
------------------------------------------------------------tccatttgcatagcataactgtc--ttgtctacttggaatatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacc-cagGTGACCCATGCAGATTTCAAGAAGGCAAAGGAGAAGGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCAT

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G056569_T01 (Zea mays), 3'ss of exon 4
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaat-tggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG
                                                           ||  | | | |   || |||   | ||| ||  | |   | ||  | || | |    || || |||  |     | |  |||   |   || |  || || |||||||| || || || |||||||| || ||||| || |||||||||||||||||||||||||| || || ||  | || |||||| | ||     |     
-----------------------------------------------------------ttttagtgtgtgtattacccaatttgcttta--actat-gtctgagcatatagtactttatggttccatttgacattgctgatgttttgttttggatacc-cagGTGACCCATGCAGATTTCAAGAAAGCAAAGGAGAAGGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGTAGACGTCTCCTGCCT

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA13G19280.1 (Glycine max), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACT-CAGTCAAGTG
                                                      |  | |||   | | || |  ||    || | | ||||||   |   ||  | ||   || |    | | | ||| ||  |  | ||| |   |  ||  ||   ||||||||||| || ||||| |||||||| ||||| ||||||||||  |||||||| ||||| || || || ||| | |||||||  || |||    || | | 
-----------------------------------------------------taatgtttatcttctctttg--gcttgtattgtt-tataatataa--tttgaagtttttttctccccaatttatga-tatcttcttactattactattt--tggt-cagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAGAAAGAAGGGGTGCCTGAAGGGCTGTATATGTGAAAAACTATCCTCTATT-

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA10G04920.1 (Glycine max), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctg-tataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG
                                                   ||   | ||      | ||| |||    |  |   |  |||||||  | | |||        || |    | | | ||| ||  |  | ||| |   || ||  | |   |||||||||| || ||||| |||||||| ||||| ||||||||||  |||||||| ||||| || || || ||| | |||||||  ||||||        | 
--------------------------------------------------tgtttaatgt---gtatctttggtttgtattgtatataatataatttgaagttttt------tttctccccaatttatga-tatcttcttactattacttttttgttc---agGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAGAAAGAAGGGGTGCCTGAAGGGCTGTATATGTGAAATACTATCCTCTATC

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgc---cctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCA-GTCAAGTG
                                                          || |   || | | | | |   || | ||  |     |  |||  ||||||||    ||  ||| |   |         | ||     |||  |  || ||    ||||||| || | ||||||||||||||| ||||| || || |||| ||||||||| ||||| || || || ||  | || ||||  |  |  ||   | | | 
----------------------------------------------------------gtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctt---------tgtt-----tggtcttctattggtttagGTGACGCATGTGGACTTCAAGAAGGCGAAGGAGAAGGTTATGTTCAAGAAGAAAGAAGGAGTTCCTGAAGGTCTTTACATGTGAATGATGCACAACGACT-

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG-
                                                   |  ||| |||  |         || ||    || ||  ||  |||| |  ||| | |   || |             | ||| | |||||||   |       |||  ||||||||||| |  |||||||||||||| ||||| || ||||||| ||||||||| ||||| || || || ||  | || ||||  || || | |  |  |  
---------------------------------------------------ggaagaagttgaatgc-----attacc----tgactacatgtttgctgatttt-agtcacctaggaccaggatcccaattaaat-ttgactggttaaatactgtgcttcagGTGACTCATGTAGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAAGAAGGGGTGCCAGAAGGACTTTACATGTGAAA-ACACTGCTACATAT

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ20767 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattct-taatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG-
                                                                                                             |   | | | ||| || |    || | |    |   |||| | |  | |  ||||| |||||||| || ||||||||||| || || || || |||||||||||||| ||||| || || |||||  | || ||||| ||||  |   | ||   
-------------------------------------------------------------------------------------------------------------gtagtttctcgatgcttttcacaactttcttgtaacgattttcttcttctccagGTAACTCAAGCTGATTTCAAGAAGGCGAAAGAGAAGGTCATGTACAAGAAGAAAGAAGGCGTCCCGGAGGGCCTGTACATGTA-AATAGCCGTCCCAGCTT

upper sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ32659 (Selaginella moellendorffii), 3'ss of exon 5
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG-
                                                                                               | ||  | | |||  |||| |    | | | |      |||  || |     |||||  | |  ||||| |||||||| || ||||||||||| || || || || |||||||||||||| ||||| || || |||||  | || ||||| ||||  ||  | ||   
-----------------------------------------------------------------------------------------------gtagtttctcaat--gcttttcacaactttctt-----gtaacgatt-----ttcttc-ttctccagGTAACTCAAGCTGATTTCAAGAAGGCGAAAGAGAAGGTCATGTACAAGAAGAAAGAAGGCGTCCCGGAGGGCCTGTACATGTA-AATAGCCATCCCAGCTT

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|162268182|gb|FC443860.1|FC443860
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|37841464|gb|BJ599472.1|BJ599472
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|22131707|gb|BQ826756.1|BQ826756
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAACAAAATTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|162258957|gb|FC435900.1|FC435900
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|37840238|gb|BJ598246.1|BJ598246
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|162216154|gb|FC392987.1|FC392987
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|37838576|gb|BJ596584.1|BJ596584
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|67578692|gb|BJ950859.1|BJ950859
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|15327439|gb|BI488180.1|BI488180
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|162224575|gb|FC400471.1|FC400471
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|37853193|gb|BJ611201.1|BJ611201
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|162243828|gb|FC423145.1|FC423145
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|18338331|gb|BJ170355.1|BJ170355
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|67724880|gb|BJ975139.1|BJ975139
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|67721284|gb|BJ971543.1|BJ971543
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|37847407|gb|BJ605415.1|BJ605415
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
EST: gi|162171248|gb|FC346393.1|FC346393
EST:     CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAG                         GTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG
genomic: CTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAG

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: 28 (upstream exon), 35 (downstream exon)
Score: 7

GGAGGAATTCGTGATGACCAAGGATGAATTCTCTGGTGCTGACATTAAAGCTATCTGCACGGAAGCTGGTCTTCTTGCATTAAGGGAGCGCCGTATGAAGgtgagcttgc ... aatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG
                                       attcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA