Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag

Basic information

species Physcomitrella patens
transcript PP1S92_47V6.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os12g21798.1 (Oryza sativa), 5'ss of exon 1
-CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatg-----gcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgatttttt--ttgtgcgtcttg--tgcag
  || |   | |||  |  |    ||     |  |  |||||||||| ||||| |||||||||||||| || |||||||| |||||    |||||||| | ||  || ||  |    |         | | ||  |   ||       |   | | |||||  |      |    |||     ||  ||  |  | || ||| ||   |||||
GACGCCGCCCGAGC-ACCACCGGAGCAGGAGCAGCGTCAGCCATGGCCGTCGGCAAGAACAAGCGGATCTCGAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtttacctctcccccccaccctcctcgtccgtccttcttcctttcgctcttggttgccatggcgcatgggtgttgatgtggcttcctgctcgttcgtttttcttgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os03g10340.1 (Oryza sativa), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTC-TGCCTCGTCCTCTG-CAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgt----ctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaa-----aactgtcatattgattttttttg------tgcgtcttgtgcag
 ||    ||| ||||| ||     |||| |  |   | |||||||||| || || ||||||||||| || ||||||||||| |||||    |||||||| | ||  ||           || | |    |  |     |  || |  |   |         |     ||||      |   |  | || | || ||  ||      ||| | |  |||||
-CGCGCCGCC-GCCGCCGCCGAGCGCCTGGAGCAGCGTCAGCCATGGCCGTAGGTAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGATCCAAGAAGAAGACgtgagtgccctcctgcccaccgttctctcctcctcctcctgcttagagatccaaaccccttcatttttactcgctagtcgctacatgggttgttgatgcagctttgcatttcttgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G030915_T01 (Zea mays), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAA-----GAACAAGCGGATTTCCAAGGGGAAAAAGGGCGG-GAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
     | | | ||  |||| || |    |   ||| | || |  || | ||  ||      | |   ||     |||||    |    ||||| |  |  |     |  | |     |     |   |     |||| | |    |||       |||| |  || |    |   |    |  |    | || | | |   || | || 
--TAGTAGTCCGCT-CTGCCTCCGAAGTGCTTTCTCCCGC-AGAGCAGCCGACAACTCTCTACCGTCCGAGACCCCAAGCACCAGCGCGGCGGCGGCGgcggcggcgaccatggctgtcgggaagaacaa---gaggatctccaagggaaagaa-gggtggcaagaaaaagacgttagtttgcttgcctgttatatcccagttcttca-

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G013457_T01 (Zea mays), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtct------aaattcaacatggcgttgtgaggt-ttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattg-attttttttgtgcgtcttgtgcag
  ||||   |  |     |    ||  || |  | ||  ||||||| ||||||||||||||| |||| |||||||| || ||||| || ||||| || | ||| || |      |  |||  |  |   ||   |  | | | |||   ||  |  |  |   |||| | |     ||   |  ||  | | | ||     | |  | |||
TAGTCTGTACCCCAAGCACCGGCGCGGCGGCGGCGGCTACCATGGCAGTCGGGAAGAACAAGAGGATCTCCAAGGGAAAGAAGGGTGGTAAGAAAAAGACgtaagtttgcttgcatgttcttcccgttcttcacatctatctcggtcaattgcttcgtttctggagcttctgctgatgcggttgtgtgtctgtgttccttttgtcttacag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G030915_T04 (Zea mays), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtg-ggtttttgtgggttgtgagcatt-taaaactgtcatattgattttttttgtgcgtcttgtgcag
    |       ||   ||  | ||  || |  | ||  ||||||| ||||||||||||||| |||| |||||||| || ||||| || ||||| || | ||  || |   | |    |    |        ||  | |   | ||  || | |||    | || |  | | ||  |  ||||  | || ||| |  |     | 
AGACCCCAAGCACCAGCGCGGCGGCGGCGGCGGCGGCGACCATGGCTGTCGGGAAGAACAAGAGGATCTCCAAGGGAAAGAAGGGTGGCAAGAAAAAGACgttagtttgcttgcc-tgttatatcccagttcttcagatctagcttgggtcgattgctttctttctttatccgt--tgctgatgctgtt-gtgtggttgcgata-

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G030915_T03 (Zea mays), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattca----acatggcg--ttgtgaggtttttggtgggt-------ttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
    |       ||   ||  | ||  || |  | ||  ||||||| ||||||||||||||| |||| |||||||| || ||||| || ||||| || | ||  || |   | |     | ||  |   |  | || | |    |||||       |||  |   || |  |    | |  ||||  | | |  ||    |     | || |||||
AGACCCCAAGCACCAGCGCGGCGGCGGCGGCGGCGGCGACCATGGCTGTCGGGAAGAACAAGAGGATCTCCAAGGGAAAGAAGGGTGGCAAGAAAAAGACgttagtttgcttgcctgttatatcccagttcttcagatctagcttgggtcgattgctttctttctttatccgttgctgatgctgttgtgtgg--ttgcgatacttcttttatgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA20G28780.3 (Glycine max), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCC--TCTGC-AGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgt--acgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaact--gtcatattgattttttttgtgcgtcttgtgcag
    |    | || | |  |    || |   |   | |  ||||||||| ||||| ||||||||||| || ||||| ||||||||||| || ||||||||   ||     |||    |    ||  |  | |    | |||  |  || ||| || ||| |   |||| |||| |  ||  | ||| |  |||||||  |  | ||||||
---CCGCAGCTGCTGTTATTCGCACCGCAAACAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAAGGGAAAAAGGGTGGCAAGAAGAAGGCgttagtatcttccgtttctattcccctttattctgtttcatttgtgtttttgcgttat---cattcaaaattcagtggttttgttggtttttgtatgaat-gtgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA10G39050.1 (Glycine max), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCT-TCTGCCTCGTCCTCTGC-AGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggt-tgtgagcatttaaaactgtcatattgattttttttgtgcgtct-tgtgcag
 | ||    |||| |||  | |  ||  ||    | |  ||||||||| ||||| ||||||||||| || ||||||||||| ||||| || ||||||||   ||  || |   ||| |  |    |       | | || |   ||| |||   |   | | |||| |||| |     |    |||  |||||| ||   |||||||
TCATCCG--CAGCTGCTTTTATTCGCACCGCAAACAGTGAGCCATGGCCGTCGGAAAGAACAAGCGCATCTCCAAGGGGAAGAAGGGTGGCAAGAAGAAGGCgttagtatc--ttccatttcttttccccttttctctgttttatttgtgtttttgctttaacattcaaaattcaatgacgtgtttggtttgtgtgtgaatgtgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA11G00890.1 (Glycine max), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
| | |    |           | |      | |    ||| ||||| ||||| ||||| ||| ||||||||||||| || ||||| || |||||||||  ||  ||    ||||       | || |    | |||  |    |  | |    | |||    ||    ||       |||||                     
CAGCCGCAGCTTGAAACAGAGCAGAGCGACCTTGAAGAGCTATGGCTGTCGGAAAGAATAAGAGGATTTCCAAGGGAAAGAAGGGTGGCAAGAAGAAAGCgttagtgcccattc-------ccttcttcactcttttattctctcctttaaactctgatttctttcttcttcttccgtgattccacag---------------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA01G44700.1 (Glycine max), 5'ss of exon 1
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgg--gttgtgagcatttaaaa-ctgtcatattgattttttttgtgcgtcttgtgcag--
| | |   ||           | |      | |    ||| ||||| ||||| ||||| ||| ||||||||||||| || ||||| || |||||||||  ||  ||    ||||         || |    |||||  |   ||| | | |  ||  |   ||||| ||  |||   | ||  || || || | |      | ||   
CAGCCGCACCTTGATTCAGAGCAGAGCGACCTTGAAGAGCTATGGCTGTCGGAAAGAATAAGAGGATTTCCAAGGGAAAGAAGGGTGGCAAGAAGAAAGCgttagtgcccattctcttcacttttttttttttttttttttatttctattgtcgtattctccattttaactctgatttgtttcttcttcttcttccgtgaatccacag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 2
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
                                                    |||||||||| ||||||||||||| |||||||| || ||||||||   ||  ||  ||    | ||   | |  | |  ||||   | ||  ||      || ||    ||   |  | ||||  |||| |  |   |||           
----------------------------------------------------GAAGAACAAGAGGATTTCCAAGGGAAAAAAGGGAGGCAAGAAGAAGGCgtgagtgcaa---tatcacaacttaatcaaattttgaattggccttatcaacttctgttgctt--gatttttcatcctgatataatcaatgcag---------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv14s0030g01810.t01 (Vitis vinifera), 5'ss of exon 2
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag---------------------------------------------
                                                    ||| |||||| |||||||||||||||||||||| || ||||||||   ||  ||   |    ||| |           ||| |   |    || | | |  | |||   || ||| |||| ||  || ||| ||||||  || || |                                                 
----------------------------------------------------GAAAAACAAGAGGATTTCCAAGGGGAAAAAGGGAGGAAAGAAGAAGGCgtgagttcca--caaacctaaaaacaacgagttctgattttcattgtcttgaat-tgacgtttcaaatctgttatcgtgttttgttttgtttgttttttttttttggtggttatttggatttcatcggatttgatatttttgctgcag

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ09763 (Selaginella moellendorffii), 5'ss of exon 2
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
                                                    |||||||||||||||||||||||| || ||||| || |||||||||||||| ||     ||   |   ||||| ||       || | | ||| | |   |  | ||                                            
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagt----gtttggcgcagcgttttg-----cctgcttgatttct-tctttcctcag--------------------------------------------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ11647 (Selaginella moellendorffii), 5'ss of exon 2
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgt-ctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
                                                    |||||||||||||||||||||||| || || || || |||||||||||||| ||  |     || | |   | |  ||  || ||| | | ||| | |  || || ||                                            
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAAGGAGGCAAGAAGAAAATgtaagtgtttggcgcagcgttttgcttcgattttattgcttgatttct-tctgtcgttag--------------------------------------------

upper sequence: PP1S92_47V6.2 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ09804 (Selaginella moellendorffii), 5'ss of exon 2
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgt-ctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag
                                                    |||||||||||||||||||||||| || ||||| || |||||||||||||| ||  |     || | |   | |  ||  || ||| | | ||| | |  || || ||                                            
----------------------------------------------------GAAGAACAAGCGGATTTCCAAGGGAAAGAAGGGAGGCAAGAAGAAAATgtaagtgtttcgcgcagcgttttgcttcgattttattgcttgatttct-tctgtcgttag--------------------------------------------

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|67571386|gb|BJ944210.1|BJ944210
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18347427|gb|BJ179473.1|BJ179473
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18347038|gb|BJ179084.1|BJ179084
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|100450921|gb|CJ974507.1|CJ974507
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18366867|gb|BJ198947.1|BJ198947
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18373995|gb|BJ205573.1|BJ205573
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|162185712|gb|FC361566.1|FC361566
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|162216969|gb|FC393087.1|FC393087
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|100360481|gb|BY984147.1|BY984147
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18351838|gb|BJ183890.1|BJ183890
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|19788665|gb|BQ040844.1|BQ040844
EST:     AAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: AAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18345407|gb|BJ177450.1|BJ177450
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|208372026|gb|DC936226.1|DC936226
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
EST: gi|18371606|gb|BJ203208.1|BJ203208
EST:     GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAAT                         TGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT
genomic: GGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATAT

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: 31 (upstream exon), 33 (downstream exon)
Score: 81

CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaa ... tcttgtgcagTGTCGATCCTTTCTCCAAGAAGGACTGGTATGATATCAAGGCACCCAATATCTTCACGCAAAAGGCGTTGGGAAAGACTCTTGTGACAAGGACTGCCGGC




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGTCTTGCCAGCCGCTGCTTCTGCCTCGTCCTCTGCAGCCATGGCGGTCGGGAAGAACAAGCGGATTTCCAAGGGGAAAAAGGGCGGGAAGAAGAAAATgtacgtctaaattcaacatggcgttgtgaggtttttggtgggtttttgtgggttgtgagcatttaaaactgtcatattgattttttttgtgcgtcttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA