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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaataatgcta...

Basic information

species Physcomitrella patens
transcript PP1S218_133V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os02g56000.1 (Oryza sativa), 5'ss of exon 2
-TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGg--tgtgtattgattacttttaccgattttc--ggaaacatcggttgccgttttcagg---gaggcgatgtgcagtttgaggacc--ttttgcggttcgaataatgcta
   |  ||       || |||| || || || ||||||||||| || ||||||||||| || || ||||||||||||||||||||||| ||| | || ||||  ||||     |  ||||| || |  || |  |  ||  |   |   |  ||| |||    ||  | | |   ||  |  || |  || ||    ||||         
GAACCTTGAGGTGGAATCCTAC-AAGGAGAAGATCAAGGAGAACCAGGAGAAGATCAAACTCAACAAGCAGCTGCCTTACCTTGTCGGCAACATCGTCGAGgtttgtgcgcgcaccactttgactgggttaccagtgaaatttcatgttcaatttaaggcccaagtagttttaatgtgcggagatcggttctggacatcga---------

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G027282_T01 (Zea mays), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttg---aggaccttttgcggttcgaataatgcta
    ||||| |  ||  |||  || || || | ||||||||| || |||||||| ||||| || ||||||||||| ||||| ||||| ||| | || ||||| ||| |   |  | |  |  |  |  ||        ||||    || | |        || ||  |  ||   |||    |||| | |    ||   | | 
GAACCTGGAGCTGGAGTCTATCAAGGAGAAGACCAAGGAGAACCAGGAGAAGATTAAGCTCAACAAGCAGCTGCCGTACCTCGTCGGCAACATCGTCGAGgtttgtttc--tcgcctcgattggctgacgctgttgatggttcatcttcttatcccttgtatttggtgactgggtaggtatgtttgggctctcgatctggtt-

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA10G29250.1 (Glycine max), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtg--tgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatg-tgcagtttgaggaccttttgcggttcgaataatgcta---------------------------------------------------
     ||||    ||  |    || || || |||||||||||||| |||||||| ||||| ||||||||| |||| ||||| || || ||| | || |||||   |  |||| ||  || | | |  ||| |||        |||   ||||  ||      ||  || |  ||| |||     ||         |  | ||                                                    
CAATTTGGAGTTGGAATCGTACAAGGACAAGATCAAGGAGAATCAGGAGAAGATTAAGCTCAATAAGCAGTTGCCCTACCTCGTTGGGAACATCGTTGAGgtagctacattgtttgtttct-ctg--ttttggatgttgtatttgggatttttgggctttgaattctgaatcttgtggaatggatggaaaaaagttgtttcttgattttttctcattgttcttggattatgacgtgataactttttgcatttag

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaataatgcta---------------------------------------------------------
     |||||   ||  |    || || || |||||||||||||| |||||||| ||||| ||||||||| |||| ||||| || || ||| | || |||||   |||  |||  || |  |  | ||  | |   |   |||   ||||  |       ||    | | |      ||     || | ||| || | |                                                          
CAATTTGGAATTGGAATCGTACAAGGACAAGATCAAGGAGAATCAGGAGAAGATTAAGCTCAATAAGCAGTTGCCCTACCTCGTTGGCAACATTGTTGAGgtacctat--attgtttgtttctctgttttggatattgtattgggatttttggacttttaattctgaatct-----tctggaatggatggaaaaaagttgtttcttgatttttaaacatttttcattgattatgacgtgataattttttgcatttag

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgta-ttgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggt-tcgaataatgcta----
    || |||   ||| ||   || || || || ||||||||||| |||||||| || || || ||||||||||||||| | || || ||| | || ||||| |  |  |  ||   ||  |  ||||| || |   ||       || || |   |   ||| || | | | |    || ||| | |  |  || ||||||    
AAATCTAGAATGTGATTCTTACAAGGAGAAGATTAAGGAGAATCAGGAGAAGATTAAACTCAACAAGCAGCTGCCTTACTTGGTTGGCAACATTGTCGAGgtattcaactagttttcttatcttatttttggtattttcctacagagtctt-acctatttgatttgaattctaa----ctgttgtgttaccatatcatgctattag

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 5'ss of exon 3
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgatttt-cggaaacatcggttgccgt--tttcag-ggaggcgatgt---gcagtttgaggaccttttgcggttcgaataatgcta
    |||||    ||  |    ||||||||||| |||||||||||||||||||||||||| || |||||||| || |||||||| || ||| | || ||||||  | ||  |  ||      | |||  | ||||  |   ||  |||  | |||| ||||   |  |   |||||  ||  | ||| |    || |||  |     
GAATCTGGAGTTGGAATCGTTCAAAGAAAAAATAAAGGAGAATCAAGAGAAGATCAAGCTCAACAAGCAGCTACCCTACCTTGTTGGGAACATCGTTGAGgtgatttttcttggctccgtttgttttgactgaaaagtttattttcgtaatatcagtggagataaaatggggcagtgcgaaaaacttctat--tttgaaaca-----

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 2
-TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaa---taatgcta--
   || ||||    ||  |    || || || |||||||||||||| |||||||||||||| || |||||||| || ||| | ||||| ||| |||| |||||   | |   ||  | |     | ||||  ||   |   ||    |||| |  | |    ||||   ||| |   || | |   |  | ||   |  | |||  
GAACA-TGGAGTGGGACTCCTATAAGGAGAAGATCAAGGAGAATCAGGAGAAGATCAAGCTCAACAAGCAGCTTCCCTACTTGGTCGGCAACATAGTCGAGgttattctctctttttctgttttaatttc--aatttttaatttttattttgaacgtgtgtttgtg---ttttaattccatctaaagcccaaagtttggttctacg

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ15061 (Selaginella moellendorffii), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaataatgcta
  | ||||| |  ||||| || || || || |||  |||||| | |||||||||||||||||| ||||| ||||||||||| ||||| || || || ||||| |||   || |  |||  | |  |||  || | ||    |    | ||| | |    |                                        
GACGCTGGAGCTGGATGCAACCAAGGAGAAGATCCGGGAGAACCTAGAGAAGATCAAGCTGAACAAGCAACTGCCTTACCTCGTCGGGAATGTTGTCGAGgtatgtcaagagtgttttctctgcatttttgagagatttcgtcttatcttccgtgtctag----------------------------------------

upper sequence: PP1S218_133V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ37626 (Selaginella moellendorffii), 5'ss of exon 2
TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaataatgcta
  | ||||| |  ||||| || || || || |||  |||||| | |||||||||||||||||| ||||| ||||||||||| ||||| || || || ||||| |||   ||    |||  | |  |||  |  | ||    |    | ||| | |    |                                        
GACGCTGGAGCTGGATGCAACCAAGGAGAAGATCCGGGAGAACCTAGAGAAGATCAAGCTGAACAAGCAACTGCCTTACCTCGTCGGGAATGTGGTCGAGgtatgtcaagagagttttctctgcatttttgggagatttcgtcttatcttccgtgtctag----------------------------------------

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|162173415|gb|FC349794.1|FC349794
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162176626|gb|FC352471.1|FC352471
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100393599|gb|BY953447.1|BY953447
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208384557|gb|DC915029.1|DC915029
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208393155|gb|DC907978.1|DC907978
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100386909|gb|BY988178.1|BY988178
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208367277|gb|DC939835.1|DC939835
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100362918|gb|BY947594.1|BY947594
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGACGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162279775|gb|FC455683.1|FC455683
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208373514|gb|DC931917.1|DC931917
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|18357560|gb|BJ189619.1|BJ189619
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGAAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100423272|gb|BY958215.1|BY958215
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162260448|gb|FC435061.1|FC435061
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208351808|gb|DC910362.1|DC910362
EST:     AGATCANGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|7207601|gb|AW561648.1|AW561648
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100377926|gb|BY986463.1|BY986463
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|67572938|gb|BJ945762.1|BJ945762
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100445050|gb|BY964349.1|BY964349
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGANACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100386534|gb|BY951330.1|BY951330
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208357259|gb|DC910656.1|DC910656
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|208378607|gb|DC903638.1|DC903638
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100447329|gb|CJ971628.1|CJ971628
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162155457|gb|FC330953.1|FC330953
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100445979|gb|CJ970278.1|CJ970278
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162167872|gb|FC344810.1|FC344810
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100382441|gb|BY969105.1|BY969105
EST:     AGATCAGGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162162468|gb|FC339199.1|FC339199
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100386348|gb|BY988015.1|BY988015
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100361517|gb|BY984045.1|BY984045
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100399109|gb|BY954204.1|BY954204
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|162168240|gb|FC344970.1|FC344970
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
EST: gi|100418425|gb|BY957412.1|BY957412
EST:     AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAG                         ATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT
genomic: AGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTT

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: 30 (upstream exon), 25 (downstream exon)
Score: 12

TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattg ... gtttgtgcagATCTTGGATGTCAATCCAGAAGATGAAGCCGAAGAGGATGGAGCTAATGTTGACTTGGATTCTCAGAGGAAGGGCAAGTGTGTTGTCTTGAAGACATCCA




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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
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TTCACTGGAACACGATGCTACGAAAGAAAAAATCAAGGAGAATCAAGAGAAGATCAAGCTGAATAAGCAGCTGCCTTACCTTGTCGGAAACGTAGTGGAGgtgtgtattgattacttttaccgattttcggaaacatcggttgccgttttcagggaggcgatgtgcagtttgaggaccttttgcggttcgaataatgcta

- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG