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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC

Basic information

species Physcomitrella patens
transcript PP1S31_178V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 5
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                         ||| ||    |   | ||     ||   | || | |||   | || ||  ||  ||| |      | |||||| ||  ||| ||  | || |       ||||||  ||||| ||| |||| || ||||| || || |||||||| ||||| |||||||||||||||||||| ||||||||  | || ||| | ||||||||||||   |
-------------------------gtttgtacataaaatccatccgtttgaataaaatgttgctgtctccttgtgatagcttg------aatttttttcttagaagct--gcttct-------tgtttt--cagGGTGTGCTGGGTATTAAGGTCAAGATTATGCTTGATTGGGATCCGAAGGGCAAGCAAGGACCAATGACTCCTTTACCGGATCTTGTTACCATCCATGCCC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os03g38000.2 (Oryza sativa), 3'ss of exon 3
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttc-ttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                      |||   |  |||    ||||  || ||  |   |||   ||  |||    || |  |||||    | |  | |  |||    ||      |||||||||| ||  | ||||||||||| || |||||||| ||||||||||| |||||||||   || || |  || || || || ||| | || |||||||||   |
--------------------------------------gtttgtttggttcaactcaagcatcgtagt---atttaaaaacctc----atgatctttttggctcaacgcacttgttcattat-----cttttgcagGGTGTTCTTGGCATCAAGGTGAAGATCATGCTCGACTGGGACCCCAAGGGCAAGGTTGGCCCGACCACCCCTCTGCCGGATCTTGTAACCATCCATGCTC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G099352_T01 (Zea mays), 3'ss of exon 3
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
            | || ||     |  |   |||||   ||    |   |   ||||     | || | | ||    | |  | |  |||   ||    | || ||  |||   | | |            |||||| ||  | ||||||||||| || ||||||||||||||||||||||||||||||   || || || ||||| ||||| ||  |||| |||||||| |  |
------------gtttgtttgctgtaatctcctcaatgtttggtcg---tctctcaagagcagggactacgttttccacgtgcttcaatttaattacc-caactaacttcaatctgtcg-----------cgcagGGTGTTCTTGGCATCAAGGTGAAGATCATGCTTGACTGGGACCCGAAGGGCAAGGTTGGCCCGATCACTCCTCTTCCGGACCTGGTGACCATCCACACCC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G074300_T03 (Zea mays), 3'ss of exon 3
gtattcttgacagctttttaatcttgttagtctcaaccgtt-cactga--gtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                 ||  | ||| ||   |   |||||  | ||   |||| |       |    | ||||||    | | ||      || ||| | |  || ||  ||   || ||         |  ||||||| ||  |||| |||||||| || ||||||||||||||||||||||||||||||   || || || || || ||||| ||  |||| ||||||||||  |
----------------gtttgttttgctacaattgcccgttgtaatgtctgtttgtctctgggtaagcacttcattttcgacgttccaaatgtaatttctca--acaaacatctttttctg---------tcgtgcagGGTGTTCTGGGTATCAAGGTGAAGATCATGCTTGACTGGGACCCGAAGGGCAAGGTTGGCCCGATCACCCCTCTTCCGGACCTGGTGACCATCCATACCC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 5
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                      |||   ||  |    |||  | || |  | | || |  |    |     | ||| | ||    |     |||  |||   ||  |   ||    ||||| ||| | || ||||||||||| || ||||| |||||||| || |||||||||||||| || |  |  ||  | || ||| ||||||| || ||  |||
--------------------------------------gtttggtgcttggtatcagatgttatcttattatgcaaacatataacaaaatagctgttagtaata---ctctagtt---gacttggctt----cagGGTGTGCTTGGTATCAAGGTTAAGATTATGCTGGACTGGGATCCAAAGGGCAAGCAAGGGCCAACCATGCCTTTACCTGATTTGGTTACAATTCACGTGC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 4
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                |   |  |  | ||||| |||| |  ||         ||||  |   |   || ||   | ||| |    | |||||      ||  ||   | |||  |||||| |||||||| |||||||| || |||||||||||||||||||| | ||||||   |||||| | ||| ||  | || ||||| || | ||| |||   |
-------------------------------gtatgctttctaatgagtctctt-atctac--------catttagtgagtaagtataccggctttgt----ctaatcttgttggttcaatccgtattt--gcagGGGGTGTTGGGAATCAAGGTGAAGATCATGCTTGACTGGGACCCTACGGGCAAATCAGGACCAAAGACACCATTGCCTGATGTTGTGATCATTCATGCTC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 5
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                            | ||||  |   | |       | |   | | |   |    |   ||||    |  |  | | |     | | || |       | ||||||| ||| | ||  ||||||| || |||||||||||||||||||| |||||||| |||||||| ||||| ||  | || ||||| || | ||||||||  |
-------------------------------------------gtcagttcttcacagtggaaacctgtttcttgaatcacattctacctagtgagatcttgtgtaacctgaatct-ggttaatcacatgtgcagGGTGTGCTTGGTCTCAAGGTGAAGATCATGCTTGACTGGGACCCCAAGGGCAAACAAGGACCGATGACACCATTGCCTGATGTTGTGATCATCCATACAC

upper sequence: PP1S31_178V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv09s0002g01460.t01 (Vitis vinifera), 3'ss of exon 5
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagt--ttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                  || |    | ||  |  ||| | |  |  | |||||||| |      | | || |||||  ||   ||      |      || || |  ||  ||    ||||| || ||||| |||||||| || ||||||||||||||||| || ||||||||||| || ||||  || || || || ||| | || |||||||| |  |
----------------------------------aatctcctattgcatggttccttacctgctttgatttcaatgttttagtt-gtctatta-cttcccaccttttttacttttttgtgaactta-attggcacagGGTGTTTTGGGTATCAAGGTGAAGATCATGCTTGACTGGGATCCCAAGGGCAAGCAGGGCCCTAAAACACCTCTACCTGATCTTGTCACCATCCACACCC

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|7207241|gb|AW561244.1|AW561244
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTTATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|7287192|gb|AW599679.1|AW599679
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|67721474|gb|BJ971733.1|BJ971733
EST:     TACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: TACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162232978|gb|FC407566.1|FC407566
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162278299|gb|FC454177.1|FC454177
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|18336578|gb|BJ168600.1|BJ168600
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162208528|gb|FC384491.1|FC384491
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162265194|gb|FC441281.1|FC441281
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|67727225|gb|BJ977484.1|BJ977484
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162265193|gb|FC441280.1|FC441280
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|19789939|gb|BQ041601.1|BQ041601
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|6167437|gb|AW145701.1|AW145701
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162232977|gb|FC407565.1|FC407565
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|37843467|gb|BJ601475.1|BJ601475
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162234016|gb|FC410308.1|FC410308
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|19788740|gb|BQ040889.1|BQ040889
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|67718871|gb|BJ969130.1|BJ969130
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|15327073|gb|BI487550.1|BI487550
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162277242|gb|FC453672.1|FC453672
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|15729381|gb|BI741287.1|BI741287
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162259149|gb|FC435195.1|FC435195
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162259148|gb|FC435194.1|FC435194
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|19787833|gb|BQ040676.1|BQ040676
EST:     CTGTCTACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162206671|gb|FC382429.1|FC382429
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162208527|gb|FC384490.1|FC384490
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162254012|gb|FC430646.1|FC430646
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162277243|gb|FC453673.1|FC453673
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|37828865|gb|BJ586877.1|BJ586877
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162271940|gb|FC448150.1|FC448150
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|37852687|gb|BJ610695.1|BJ610695
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162271941|gb|FC448151.1|FC448151
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|15730093|gb|BI741664.1|BI741664
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|162206672|gb|FC382430.1|FC382430
EST:     CTGTCAACGATTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
EST: gi|37852142|gb|BJ610150.1|BJ610150
EST:     CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAG                         GGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC
genomic: CTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGC

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: 34 (upstream exon), 35 (downstream exon)
Score: 41

TGCAAAGTCCATGAAGTTCAAGGACGGATACATGATATCATCTGGAAGCCCTGTCAACGACTACATTGATAGTGCTGTAAGACACGTCATGTTGCGACAGgtattcttga ... gtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC
                                            tgttttt  CT-rich tract
     ttattagttttttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcttgacagctttttaatcttgttagtctcaaccgttcactgagtttcttcaattattgtgatttcattcggaaggctcgtttattagttttttactacgaatctcaggttttggatgtatgtttttgcagGGAGTGTTGGGCATCAAGGTTAAAATCATGCTTGACTGGGACCCGAAGGGCAAGCAAGGACCTATGACTCCCCTTCCAGATGTGGTTACCATCCATATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG