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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA

Basic information

species Physcomitrella patens
transcript PP1S136_175V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttgga-gttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
              |  || |  ||  |     |     |||  | | | | |   |    |||  || |       | ||||||||    | | |      |||| | ||||       |||||  ||||| || || || || || |||||||| ||||| |||||| | || || ||||||||||| || || || ||||| ||||| ||||| || ||||||||||
-------------gtaaggctccgatcgagacctatccattccagagcagtctcgatctcgtcacccatgg------atttcgagatttgatgcgc------ccttttttttg-------gctcg--cagTTCGTGGCGGATGGGGTGTTCTTCGCGGAGCTGAACGAGATGCTGACGCGCGAGCTCGCGGAGGACGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                         |    | | | |    |        ||   | |  |   ||| | | |||           | |  || | |  ||| | |  |       |||      |||||| || || || || || |||||||| ||||| || ||| | || |||||||||||||| || ||||| ||||| ||||| ||||| || ||||||||||
-------------------------gtatggctcgtacccgtctc----cgtcttttgcgtggcgcatgggttct-----------gtatgtctcatcatgcgtcgcttgctcacccgcttggtcgcagTTCGTGGCGGATGGCGTGTTCTTCGCGGAGCTGAATGAGATGCTGACCCGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G099352_T06 (Zea mays), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtc---------gcgctcg----tgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                                                               | | ||||| ||| ||    |  |  || ||||  |  || || ||   |||           | |||||    || |||| ||    ||||| ||||||| ||| |||||||| ||| | || || || ||||| || || || || |||||||||||||||||||| ||||| || |
--------------------------------------------------------------gtacgcgagcgcttcctaaccgcagtgctcccctcccccccgtgcgtcgatggatctgacctcggtgctcggttttgtagTTCGTCAGCGACGGTGTTTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTGGCGGAGGACGGCTACTCTGGCGTGGAGGTGCGCGTCACGCCGA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv09s0002g01460.t01 (Vitis vinifera), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                || || |   ||||    |||||  |  | |||||  | |   |          ||| ||  ||     |  | |     |    | |   | || |  | |    | | |||||||| || || ||||| |||||||| |||||||| ||| |||||||  | ||||||||||| |||||||||||||| || || ||  | |||||||| |
---------------gtgatttgacaaggaacg-ggagtgtt--tcaaatgctaatcaga--------aggcttttttttttg--tttattaaatctgaatcttgtggattcttattgaatgcct-cagTTTGTGGCTGATGGAGTCTTCTTCGCGGAGCTCAATGAGGTTCTCACTAGAGAGCTCGCTGAGGATGGTTACTCTGGTGTTGAAGTTAGGGTCACCCCAA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
              | || |     |     |||    |||   ||   | | ||    | ||  |   |  |  |  ||   | |  | || |  ||     || |||||         ||| | ||||| ||||| || ||||||||||| |||||||| |||||| |||||||| | ||||| || || ||||| |||||||| || |||||  | || || || |
-------------gtctgatcatatgttc--ttttattttcctttgttttctgagct--accaatcggaaagttatgttt---gttaaagtttcggtaacttattttgtttt--------ctcttacagTTCGTAGCTGATGGAGTTTTCTTTGCTGAGCTGAACGAGGTTCTCACCAGAGAGCTGGCCGAGGATGGCTACTCTGGTGTCGAGGTTAGGGTTACGCCAA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EDP07493 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                    | ||  |||  | || |  | | | |   ||| ||      |  |  ||  | ||| |   || | |    |   |    |  || | ||  |    | || |   ||||| ||    ||||| || |||| ||| ||||| |||||||| || ||||||||||| || || ||||| ||||| || |||||||| || || |||||||
-------------------gtaggccaggcttctgaatatgttgcggc-tgtgagcgcgggc--ggccggccccttgcgaggacaggtggctaagtctacgtattctattgctccatgtgc-cacacagTTCGTCCAGGACGGCGTGTTCTACGCCGAGCTGAACGAGCTCCTGACCCGCGAGCTGGCCGAGGATGGCTACTCCGGTGTGGAGGTCCGCGTGACCCCCA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ34676 (Selaginella moellendorffii), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                                                                              || |  | ||| | ||  | |  |||    ||        | ||| | ||||| || || || ||||| |||| ||| |||||||| ||||||||||| || ||||| || || ||||| ||||| |||||||||||||||||||| || |
-----------------------------------------------------------------------------gtttgtcaagcaatgccgctccctcctctgatt--------ctctcttccagTTCGTCGCCGATGGAGTGTTCTACGCCGAGCTCAATGAGCTTCTCACGCGGGAGCTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ34304 (Selaginella moellendorffii), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                                                                           |  |  |  ||||   |||||   |  | | || || || |     || | ||||| || || || || || |||| ||| |||||||||||||||||||| || ||| | || || ||||| ||||| |||||||||||||||||||| || |
------------------------------------------------------------------------gtctgttcagcaatgccgctccctccttctcctctgatt-tgat-----tcttccagTTCGTCGCCGATGGCGTGTTCTACGCCGAGCTCAACGAGCTTCTCACGCGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ31038 (Selaginella moellendorffii), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                                                                              || |    ||| | ||  |    |||| || |  || |     || | ||||| || || || || || |||| ||| |||||||||||||||||||| || ||| | || || ||||| ||||| |||||||||||||||||||| || |
-----------------------------------------------------------------------------gtttgttcagcaatgccgctctccccttctgctc-tgatttgattcttccagTTCGTCGCCGATGGCGTGTTCTACGCCGAGCTCAACGAGCTTCTCACGCGGGAGTTAGCAGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

upper sequence: PP1S136_175V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ31296 (Selaginella moellendorffii), 3'ss of exon 1
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                                                                          ||  |  |  ||||   || |    |  | | || |        | ||| | ||||| || || || ||||| |||| ||| |||||||| ||||||||||| || ||| | || || ||||| ||||| |||||||||||||||||||| || |
------------------------------------------------------------------------gtttgttcagcaatgccgctctccccttctcctctgat--------ctctcttccagTTCGTCGCCGATGGAGTGTTCTACGCCGAGCTCAATGAGCTTCTCACGCGGGAGTTAGCGGAGGATGGATACTCGGGCGTGGAGGTGCGTGTCACACCGA

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|18342317|gb|BJ174352.1|BJ174352
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGTTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18348091|gb|BJ180138.1|BJ180138
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162238741|gb|FC419052.1|FC419052
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|100353473|gb|BY964824.1|BY964824
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18328942|gb|BJ160948.1|BJ160948
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162265655|gb|FC441618.1|FC441618
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|37823786|gb|BJ581852.1|BJ581852
EST:     ACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTNTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: ACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162258820|gb|FC434827.1|FC434827
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18328002|gb|BJ160006.1|BJ160006
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162267778|gb|FC443768.1|FC443768
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18344831|gb|BJ176872.1|BJ176872
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162280359|gb|FC456064.1|FC456064
EST:     GTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: GTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18332204|gb|BJ164217.1|BJ164217
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|37821437|gb|BJ579503.1|BJ579503
EST:     TTTGCAATTTCCTACCGTTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGTTGAGCTCAACGAGCTTCTCACCCGC
genomic: TTTGCAATTTCCTACCG-TCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18332244|gb|BJ164257.1|BJ164257
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|18344586|gb|BJ176627.1|BJ176627
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|67719851|gb|BJ970110.1|BJ970110
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|100444204|gb|BY964102.1|BY964102
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCACATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|208375019|gb|DC956415.1|DC956415
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|67728112|gb|BJ978371.1|BJ978371
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|162238740|gb|FC419051.1|FC419051
EST:     GTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAG-TTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: GTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
EST: gi|208386351|gb|DC932847.1|DC932847
EST:     CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAG                         TTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC
genomic: CTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGC

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), 29 (downstream exon)
Score: 12

GCTTCGTCGCCTCCTCTCGAACTCAATCGTCGAAGGCGGCAACTTAGCCGCTTTGCAATTTCCTACCGTCATGGCTACTCAGATGAGCAAGAAGCGTAAGgtgagagaat ... gctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA
                  cccttac  putative branch site (score: 12)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagagaattctatttggttgggagaggagtttggagttctggtgaaatgtaagtagaatcatgcacgagctcttacttcgagatgcacttcccttactgccttgtgtttgtggtcgcgctcgtgcagTTTGTAGCAGACGGAGTTTTCTTCGCTGAGCTCAACGAGCTTCTCACCCGCGAGCTCGCTGAAGATGGTTACTCTGGCGTGGAGGTGCGTGTCACCCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG