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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct...

Basic information

species Physcomitrella patens
transcript PP1S171_56V6.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccat-ttccagctc--tttattcttgcttt-cgaaggtctctgcttatgt-gcaatctctgtttctct--
| ||||| ||||| |||||||| ||| |||| || ||||||||||| ||||||||||| ||||||||||| || ||  |||| |||||||||||    |||| |      |||| |    ||   || ||      |  || |  |||||     |   |||| |||    |  ||  | | | |||  |||    || | ||    
GTATGGGGTTCATTCAGTCCAACCACTCTGTGATCATGTACAACAACACCATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os11g37890.3 (Oryza sativa), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcat-----gctcctctctgcccttccaattttac-cttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| ||||| || ||||||||| |||| || ||||||||||| |||||||||||||| ||||||||||| ||| |  | || |||||||||   ||||   |      ||  |    || ||   |||   |   ||     ||  |   |   |  | | |  | | ||| ||| |     | |  ||   || |      
GGATGGGATTCATTCAATCCAATCACTCTGTTATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCCGCTAGGATTAATGGTGTCAAAAGgtaacttttgaactggtgctggctctgtaaatcccatgttttatttttcaccaattgatgctataggatgctaagatctgttaaggtatataaagcctat------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctct-----gcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| |||||||||||||| ||| | ||||| ||||||||||| |||||||||||||| ||||||||||| ||  |  | || || || |||   ||||   | |    |||      ||   ||    |||| | |       |  | |    |   || | ||||  |  | |   ||   |||| |  ||||||     
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctag-tttcatatatattgcctccagtgctaaatctgttc----

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctct---ctgcccttccaattttaccttagcca---------tttcca---------------gctctttattcttgctttcgaaggtctctgcttatgtgcaat--ctctgtttctct-------
||||||| ||||||||||| |||||| |||| || ||||||||||| ||||||||||| || |||||||| || ||  |||| |||||||||||    ||||  ||   |   |    ||||  | || |||     | ||           || |||               ||| |||        |||  || |   ||  | |||   |||       |||   |       
GCATGGGGTTCATCCAGTCAAATCACTCTGTGATCATGTACAACAACACCATGATCAGTTTTAACATGCTGGAGGCTGCACGTATCAATGGTGTGAAGAGgtatatatacaaatatattgccacttcattttctttctggctggtgaataacttcccaagtaatctagctgatgctatttgactgaagttttcaaagaacctattcatgcataatagtatcattttggtctggcag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA03G40720.1 (Glycine max), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct---------------
| ||||| |||||||||||||| ||| | ||||||||||||||||| |||||||| |||||||||||| |||| ||  |  | |||||||||||    ||||      || | |    |   |   | |||   | | || || ||  |   |  | | |  ||   | ||| | | | ||  |  |||  ||||| |                 
GGATGGGTTTCATCCAGTCCAACCACTCGGTCATTATGTACAACAACACCATGATTAGCTTCAACATGATTGAGGCTGCCAGGATCAATGGTGTTAAGAGgt---cattcattttgaacaaacatgtgttattat-gtcactttcaattgcatgatatagtcttt--atgtcgccg-tcata-gtgatccttgttttttggtttattttttttag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA19G43400.1 (Glycine max), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct----------------
| ||||| || ||||||||||| ||| | ||||||||||||||||| |||||||| |||||||||||| |||| ||  |  | |||||||||||    ||||      || | |    |   |   | |||   | | || || ||  |   || | | |  ||   | ||| ||| | ||  |  |||  ||||| |                  
GGATGGGTTTTATCCAGTCCAACCACTCAGTCATTATGTACAACAACACCATGATTAGCTTCAACATGATTGAGGCTGCCAGGATCAATGGTGTTAAGAGgt---cattcattttaaacaaacatgtgttattat-gtcactttcaattgcataatatagtcttt--atgtcgctg-tcata-gtgatccttgttttttggtttattttttttaag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA19G43410.1 (Glycine max), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct-----------------
| ||||| || ||||||||||| ||| | ||||||||||||||||| |||||||| |||||||||||| |||| ||  |  | |||||||||||    ||||      || | |    |   |   | |||   | | || || ||  |   || | | |  ||   | ||| |||     |||  |||  ||||| |                   
GGATGGGTTTTATCCAGTCCAACCACTCAGTCATTATGTACAACAACACCATGATTAGCTTCAACATGATTGAGGCTGCCAGGATCAATGGTGTTAAGAGgt---cattcattttgaacaaacatgtgttattat-gtcactttcaattgcataatatagtcttt--atgtcgctgacatagtg--atccttgttttttggtttatttttttttaag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA10G30400.1 (Glycine max), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaatt--ttacctt------agccatttccagctcttta--ttcttgctttcgaaggtctctgcttatgtgcaatctc-----tgtttctct--
| ||||| || || ||||| || ||| ||||||||||||||||||| || ||||| |||||||||||| |||| ||  |  | || || ||  |    ||||      || |      | || |||||  ||   ||      |  |||||      |  |   |  ||   || || | |      || | |||  |||      | ||| ||   
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagccatcatgcacatcatttcaattatttgtttttggaccaaacatttatgatgcggtggctgttttgattagatgatgatgtgttttatgcgttctgaaaaatatttttccag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttac-cttagccatttccagctctttattcttgctttcga---aggtctctgcttatgtgcaatctctgtttctct--------------
| ||||| || || ||||| || ||| ||||||||||||||||||| || ||||| |||||||||||| |||| ||  |  | || || ||  |    ||||   || |  ||  |  | || ||||| ||   || |  | |      | | |  | | |  |  |       | | || | |||||   | |   || |                 
GGATGGGTTTTATTCAGTCTAACCACTCTGTCATTATGTACAACAACACAATGATTAGCTTCAACATGATTGAGGCTGCCAGGATTAACGGCATTAAGAGgttagtgatggtccatatcatttcaattatatgttttgtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv05s0020g04510.t01 (Vitis vinifera), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattc-ttgctttcgaaggtctctgcttatgtgcaatctc----tgtttctct-
| ||||||||||| |||||||||||| |||| || ||||| ||||| || ||||| ||||||||||||||||| || ||| | |||||||| ||    ||||   |    |||  ||   |  | | ||    |||||  ||  ||| |||||     ||| |||   |  | ||| || || || || |      |  || | | 
GTATGGGCTTCATTCAGTCCAATCACTCTGTTATCATGTATAACAACACAATGATTAGCTTCAACATGCTTGAGGCTTCAAGAATCAATGGGGTTAAGAGgtttgt----ctccttggattcactacttatttttagct-ttatcagttctttccaagttgatttgagaattatctact-atttgaaaccaaagaatacttttttg

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv14s0030g02180.t01 (Vitis vinifera), 5'ss of exon 2
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct---------------------------------------------------------------------------
| ||||| |||||||||||||| ||  | || ||||||||||| || || ||||||||||||||||||||||| || ||  | |||||||| ||    ||||   |  || ||  |    ||| |   |  | ||  | |     || |||  |||  || | |  ||  |   | | | |   ||   | | | | |||                                                                           
GAATGGGGTTCATCCAGTCCAACCATTCAGTTATTATGTACAATAACACAATGATCAGCTTCAACATGCTTGAGGCTTCTAGGATCAATGGGGTTAAGAGgtttgttgtcttcaat-ttgttctatcctggctttgacta-----agttctccatt--tgatatgaaaattggtttcatgtactcagcatttatctgtctaggagacgtaaatttactaatgaatttttctggtcctgagaattctctaatatctgattattccacattgtgcag

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 5'ss of exon 3
-----GCATGGGCTTCATCCA---GTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttc-cagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
     ||  |||||     ||   || ||| |  || | |   |||  |  ||    | | |||   | ||||      |    |     || |||           |||||  ||      | |   | |    |||      |  |  |     |    |   |  | |  |        | |  | |  | || |  ||   |   
GGTGTGCGAGGGCTGTGAGCACGTGTTCAACCTGGCCGCCGACATGGGCGGCATGGGCTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACAC--------Ggtgcgagccggggccggggttgcgggctttgggccggttacctggttacgggctgggcgggttaccaggttgtcccgtctgttggaaagcagtgcggcga-

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ37016 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| ||||||||||| |||||| | |||||  | | |||||||||||||||||||||||||||||| || ||||| || |||||||| |||   |||||     || ||| |    |||| |    |  || |  |  ||   || ||  || | |||| |                                   
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttcttt--tgttccgag---aatttgg--agctc--acttttccttttggcttgcag---------------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ19598 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| |||||||||||||||||| |||| ||| | | |||||| ||||||||||| ||||||||||| || || || || |||||||| |||   ||  | |  ||    | |  |       || | ||  ||  ||||  |||||  |  ||| ||||     ||  ||                          
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCGTCCCGGATCAATGGAGTCA--AGAGgtagcctgtgatgtttctaagttgttcttcccaagg-atttggagctcact-ctctcgctt-----ggcttccag-----------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ37510 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| ||||||||||| |||||| | |||||  | | |||||||||||||||||||||||||||||| || ||||| || |||||||| |||   |||||     || ||| |    |||| |   |        ||||| |    ||||   |||||                                       
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttcttt-tggttccgagaatttggagctcattttc----cttttggcttgcag-------------------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ33664 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| ||||||||||| |||||| | |||||  | | |||||||||||||||||||||||||||||| || ||||| || |||||||| |||   |||||     || ||| |    |   |     |  || |  |  ||   || ||  || | |||| |                                   
GGATGGGTTTCATCCAGTCGAATCACTCAGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttctttttgttctgag----aatttgg--agctc--acttttccttttggcttgcag---------------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ10353 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| |||||||||||||||||| |||| ||| | | |||||| ||||||||||| ||||||||||| || ||||| || |||||||| |||   ||||  |  ||    | |  |       || | ||  ||  ||||  |||||   | |||  || | |  | |  | |                        
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAATGGAGTCAAAAGgt--agcctgtgatgtttctaagttgttcttcccaagg-atttggagctc---actctctctcttg--gcttccag------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ18599 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctc---tttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| |||||||||||||||||| |||| ||| | | |||||| ||||||||||| ||||||||||| || ||||| || ||||| || |||   ||||  |  ||    | |  |       || | ||  ||  ||||  |||||    |  ||||||  ||| |                                 
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAACGGAGTCAAAAGgt--agcctgtgatgtttctaagttgttcttcccaagg-atttggagctcactctctttcttggcttccag--------------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ36458 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctc---tttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| |||||||||||||||||| |||| ||| | | |||||| ||||||||||| ||||||||||| || ||||| || |||||||| |||   ||||  |  ||    | |  |       || | ||  ||  ||||  |||||    |  ||||||  ||| |                                 
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAATGGAGTCAAAAGgt--agcctgtggtgtttctaagttgttcttcccaagg-atttggagctcactctctttcttggcttccag--------------------------------

upper sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ34003 (Selaginella moellendorffii), 5'ss of exon 1
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct
| ||||| ||||||||||| |||||| | |||||  | | |||||||||||||||||||||||||||||| || ||||| || |||||||| |||   |||||     || ||| |    | | |     |  || |  |  ||   || ||  || | |||| |                                   
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttctttttgttccgag----aatttgg--agctc--acttttccttttggcttgcag---------------------------------

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|208349864|gb|DC905988.1|DC905988
EST:     ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAG                         GTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA
genomic: ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctc ... gatgttgcagGTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA
EST: gi|67719266|gb|BJ969525.1|BJ969525
EST:     ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAG                         GTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA
genomic: ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctc ... gatgttgcagGTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA
EST: gi|100402383|gb|BY954808.1|BY954808
EST:     ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAG                         GTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA
genomic: ATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctc ... gatgttgcagGTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGA

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: 3

GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctc ... gatgttgcagGTTTTTCTATGCTTCAAGCGCGTGTATCTATCCTGAATTCAAACAGCTGGAGACTGACGTGAGCAGCCTGAAGGAGTCGGACGCTTGGCCCGCTCTG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctctgcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct

- - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC