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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac...

Basic information

species Physcomitrella patens
transcript PP1S34_308V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g13300.1 (Oryza sativa), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccat-tttgagtgcattgcactctacgac-----
 || || ||||||||||| ||||| ||||||||||||||||| ||| |||||||||||||| | |||||||||||||||||  | ||||| ||||| |||||   ||| |  | |       | | |||   | ||  |  |       ||       |    |  ||   |||      |  |  | ||||| ||   |      
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATCATGGCCGCCATCAACAAGAACTACGTCGACATGGACGAGTACCCCGTCACCACCGAGCTCCAGgtac-agcaccctgca-----ggcatctctgcttcgttgaattttctcctatcacctcgcgttttctcgccgccgcgcgcggctcgaatgcacactggaaatcccc

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os04g37460.1 (Oryza sativa), 5'ss of exon 1
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac
 || || ||||||||||| ||||| ||||||||||| ||||| ||| |||||||||||||| | |||||||| ||||||||  | ||||| ||||| |||||   |  |    ||| |  ||  |||  ||           ||  || |  || |     ||   ||||  | |    |  | |  || ||        
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATGATGGCCGCCATCAACAAGAACTACGTCGACATGGATGAGTACCCCGTCACCACCGAGCTCCAGgt---aaacaaccaccacgacaacaac--aa-----------acacctctgcatctgcacaacgcatcatgtctaacacggatccgatgaacag------

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os08g36320.3 (Oryza sativa), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgca-ttgcactctacgac-----
 || || ||||||||||| ||||| ||||||||||||||||   || | |||||||||||| | |||||||||||||||||  | ||||| ||||| |||||   |    || | |      | | ||   ||       ||    ||   |  |  |   ||| | | ||        | ||| | |   ||| ||  |      
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATCATGGACTCCGTTAACAAGAACTACGTCGACATGGACGAGTACCCTGTCACCACGGAGCTCCAGgtcggaa---ttaaaccacatgggatctttcttctat---tttgttctccgggctgataatacttgcccttttggacaagggtgaagtcaaactttagaatctttg

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g51080.1 (Oryza sativa), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgc-actctacgac--
 || || ||||||||||| ||||| ||||||||||||  |||  || |||||||||||||| | |||||||||||||||||  | ||||| || || |||||  |   ||    |  |||  |    ||    || | ||   |  |            |||       | | | ||| | || | ||   || |  | |   
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATCCAGGCCTCCGTCAACAAGAACTACGTCGACATGGACGAGTACCCCGTCACCACCGAACTCCAGgtactcctcccccccacctt--gcttttccgccgccgcggccgccacccccctccctcctcatcccgt-tcgtcgtttcgcgttcgttattacgccgcaaatt

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os04g37500.1 (Oryza sativa), 5'ss of exon 1
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattt-----tgagtgcattgcactctacgac----
 || || ||||||||||| ||||| |||| ||||||| | | |||| ||||||||||||||   |||||||||||||||||  | ||||| ||||| ||||    |||  |  | |    || |    ||  | |    ||  |  |  ||   ||  ||  |    | |||   ||       ||   |  ||  |    ||      
CACCACCTGGATGGAGCCCGAGTGCGACAGGCTCATCCTCGAGGCCATCAACAAGAACTACGCCGACATGGACGAGTACCCCGTCACCACCGAGCTCCAGgca--agcaatcaaacaaaccaaa---ccatataccctcgtctcctccatatcctttcgttgcattgcgttgtggttgacgtacgacgacgatggccctggcgttgcag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G098875_T02 (Zea mays), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatt--tctgtcactggtcattgccattttgagtgcattgcactctacgac-------------------------------------
 || || ||||||||||| ||||| ||||||||||||||||| ||| |||||||||||||| | |||||||||||||||||  | ||||| ||||| |||||       | | |||   |||| |||    ||   ||    |  | | | | ||       ||   | || | |||     |  |  |   | | |  | |                                     
CACCACCTGGATGGAGCCCGAGTGCGACAAGCTCATCATGGCCGCCATCAACAAGAACTACGTCGACATGGACGAGTACCCCGTCACCACCGAGCTCCAGgtacatcatcatcaccc--tcagcaacgatctttttgatcggagagttcttggttggctgaccaaaagccagttccagcagaaccgactcagattttgtgtcttctctctcctgacactcgactgcggcgacattgcag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G017110_T01 (Zea mays), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactc-aattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac-----
 || || ||||||||||| ||||| ||||||||||||||||   || |||||||||||||| | |||||||||||||||||  | ||||||||||| |||||   ||    ||| | |  |||||  |  ||    |||| | |  | | ||||  |  |     ||  |  |       |||      |   |||| |       
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATCATGGACTCCATCAACAAGAACTACGTCGACATGGACGAGTACCCCGTCACCACTGAGCTCCAGgt---agtatgttagcaccacagaaggtagaagaaaggagatcagagat-tagagctaggaagacgg--aaggaagacgagagctagacggggtctaagtaaattg

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM5G826838_T01 (Zea mays), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaact--------caattgcggag-gttacggctgtagatttctgtcactggtcattg-ccattttgagtgcattgcactctacgac
 || || ||||||||||| ||||| ||||||||||||  |||  || |||||||||||||| | |||||||||||||||||  | ||||| ||||| |||||     | ||   || || | |    |        | || ||  |  | |   || | |||| | | |  || ||    |  |||  |||  || | |           
CACCACGTGGATGGAGCCCGAGTGCGACAAGCTCATCCAGGCCTCCGTCAACAAGAACTACGTCGACATGGACGAGTACCCCGTCACCACCGAGCTGCAGgtacgctcgctgcgccgctcctgcttgttgctccgtcgatcgctcattgatcgagccgcagatatgtatggctagttccgggtcatgatgatagcgtggt----------

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G101069_T01 (Zea mays), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgt----tttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac
||| || ||||||||||| ||||| ||||||||||||  | |  || |||||||||||||| | |||||||| ||||||||  | ||||| ||||| |||||    ||  | |  |     |  |||  ||     |  |   | |    | || | |   | | |   |    || |  | |   || |||| |    |  | 
GACCACTTGGATGGAGCCCGAGTGCGACAAGCTCATCCAGTCCTCCATCAACAAGAACTACGTCGACATGGATGAGTACCCCGTCACCACCGAGCTCCAGgtacgcttctgtctctgctggcggcagctacctggctcagatcgatcgatcggtcggtcgatctaatacgcatgtgtctctgtacttggattgaaacggaacag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA18G04940.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgtt-ttagccctt----tacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac
|||||| |||||||||||||||||||| || ||||||||||| ||| | || ||||||||  |||||||||||||||||||  | ||||||||||| |||||   || ||||     || || |  |   |  | ||        ||     | |   | ||| |   |  |  ||    |  |   || | ||    ||     
GACGACTTGGATGGAGCCAGAGTGTGATAAACTCATCATGGCTGCCATTAATAAGAACTATGTTGACATGGACGAGTACCCTGTCACCACTGAGCTACAGgtaactaaccctaccaatatctatatatcgatactatcttccttcttcatcttctctttctctttattttattttttttttccttcttggaatgttgcct-----

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA16G34450.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcact--ggtcattg----ccattttgagtgcattgcactctacgac--
||| || ||||||||||| ||||||||||||||||| |||||  | || |||||||||||| |||||||||| ||||| ||  | ||||||||||| ||||| |  | |  ||  |||      |    | |||| |   |||    | ||   |  || || |  |||| |||     || | ||     |  | | | ||  |   
GACCACTTGGATGGAGCCTGAGTGTGACAAGCTCATAATGGCTTCACTTAACAAGAACTACGTTGACATGGATGAGTATCCTGTCACCACTGAGCTCCAGgtct--gtcacttctctc------agtatatttgctgtctttattattatatgatcatgacatttaggtccttgaagttcagtctgtcaaaaaaggattttaaaaaat

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA02G40840.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttt-tagc-cctttacctcttcagaaact---caattgcggaggtta--cggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac
|||||| |||||||| || ||||||||||| ||||||||||| ||| | ||||| || ||| | |||||||| ||||||||  | ||||||||||| ||||    || | | | ||||      || | |   |||||    | ||    |   |   |||    |  |      | |    |  |  | | |||    |       
GACGACGTGGATGGAACCTGAGTGTGACAAACTCATCATGGCTGCCATTAACAAAAATTACGTCGACATGGATGAGTACCCTGTCACCACTGAGCTCCAGgcaagtatcacatataccatacttgatattaatcaattattaatgtcgttcaattaaggatgagagataacatatactatattcgtaggagtattaattt-------

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA09G29900.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactg-gtcattgccattttgagtgcattgcactctacgac
||| || ||||||||||| ||||||||||||||||| |||||  | || ||||| |||||  |||| ||||| ||||| ||  | ||||||||||| ||||| |   |  | |  | ||||     ||   ||| | |  ||   |   |   | | | | | |  | ||||    |  |    |    |      |  | 
GACCACTTGGATGGAGCCTGAGTGTGACAAGCTCATAATGGCTTCACTTAACAAAAACTATGTTGATATGGATGAGTATCCTGTCACCACTGAGCTCCAGgtct-gtctgtgtgtcacttctctctcttccttgagtattttggtgtctttattatatctgattatgacatttaggtccttgaagttcggtctgtcaaaaa

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA14G39170.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcag-aaactcaattgcggaggttacggctgtagatt------tctgtcactggtcatt-gccattttgagtgcattgcactctacgac
    || ||||||||||| || |||||||| ||||||||||| ||| | ||||| |||||| | |||||||| ||||| ||  | |||||||| || ||||    || ||   ||   ||||  |   |||||       | ||    | |   ||      | | ||||  |   || |  | ||| | |    |  |   |  || 
----ACGTGGATGGAGCCTGAATGTGACAAACTCATCATGGCTGCCATTAACAAAAACTACGTCGACATGGATGAGTATCCTGTCACCACTGAACTCCAGGCA--Agtcccacactaattcattattttcaatcatcagagataaaattttcatttaatcaatttctcacatgcggttagataatttaaatattctttaag-tgtga-

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA08G09650.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgt------------tttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac-----
||| || |  |||||   ||||||  |||| || |||||||   || |||||||||||||  |||||||||||||||| || || |||||||| ||||| ||            || |    ||| ||| || |  |  |  |||     |  |  | || || ||  || |||||     ||  | || |  | |  ||| ||  | |||      
GACCACTTCCATGGAAGAAGAGTGCAACAAACTAATCATGGAATCCATCAACAAGAACTATGTTGACATGGACGAGTATCCTATCACCACTGACCTTCACgtgcgttctcataattaatgttttttcctattgaatatttatattttttggtgtttgacttta-atccctatcactaacatttttctttctctg-gttttgtacctttcgaaaacag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA05G26660.1 (Glycine max), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggtta-----cggctgtagatttctgtcactggtcat---tgccattttgagtgcatt----gcactctacgac-----
||| || |  |||||   ||||||  |||||||||||||||   || |||||||||||||  |||||||||||||||| ||    ||||| || ||||| ||  |  | | |   ||  |||||     |  | |       |         | || || | | |   | |  ||      |||||    ||  ||    | ||| |  ||      
GACCACTTCCATGGAAGAAGAGTGCAACAAGCTCATCATGGAATCCATCAACAAGAACTATGTTGACATGGACGAGTATCCTGCCACCACCGACCTTCACgtactttctcatcttcttctcagagctatatatacaacaacaataaattaattataaatctttatattttggaatatgaaacatttcttatgttttttgtgtactttttgaaaccag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv04s0079g00600.t01 (Vitis vinifera), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctc-ttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac--
||| ||||||||||| |||||||| || ||||| ||||||||  || | |||||||||||| |||| ||||||||||||||  | ||||||||||| ||||||    ||  ||||| | ||    |   | | |       || |   |||   |||||    ||   || |  ||  | || |  |||    ||   ||   
GACAACATGGATGGAACCAGAGTGCGATAAGCTAATCATGGCCTCCATTAACAAGAACTACGTTGATATGGACGAGTACCCTGTCACCACTGAGCTACAGgttcctccctcttaccccatttcctattcctactctatttcttcc--ttgtccttttcttctgctatccaatctcagat-gatttgattcttgtcagggattt

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv01s0011g06600.t01 (Vitis vinifera), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctg-tagatttctg--tcactggtcattgccattttgagtgcattgcactctacgac
||| || ||||||||||| || ||||| ||||| || ||||| ||| | |||||||||||  | |||||||| || |||||| |||||||||||||||||||      |  |||  | |    |  || |||     |   |||  ||  |   || |||  |  ||||||| || |      || |     |  || |    
GACTACTTGGATGGAGCCTGAATGTGATAAGCTTATGATGGCTGCCATAAACAAGAACTATGTGGACATGGATGAATACCCGGTTACCACTGAGCTTCAGgtaagtctctcttatttttctttaccctaaatgttccactctactactcctccgttactggttagctggtcactgtccaccgaagcggcgaccgatccaa---

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv17s0000g00920.t01 (Vitis vinifera), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgt-tttagccctttacctcttcagaaactcaattgcggaggttacggctgtagattt----ctgtcactggtcattgccattttgagtgcattgcactctacgac
|||||| |||||||||   |||||||| ||||| ||||||||  || | |||||||||||  | |||||||| ||||| ||  | |||||||| |||||||  |||  | |  | |   |||      | |||  | |   ||    || | ||| |     || ||   |      | | |||      ||| | |  ||    
GACGACTTGGATGGAGGAGGAGTGTGATAAGCTGATCATGGCTTCCGTTAACAAGAACTATGTGGACATGGATGAGTATCCAGTCACCACTGAACTTCAGgcatttctctccctcctctttctatctattaataactgttcttcttcct-tggatctagggttggcaaatgatgaaactaatttagtaagatttcgccata----

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ18071 (Selaginella moellendorffii), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac----------------------------------
 || || ||||||||||| |||||||| |||||| |||||||  | ||||||||||| ||||| || ||||||||||| ||| | ||||| ||||| ||||||  |       |  ||||  ||  |   | |  | | |||     |||    ||   |   |  || |     |   ||     | ||  | |                                       
CACCACTTGGATGGAGCCCGAGTGTGATAAGCTCGTCATGGCCTCGCTCAACAAGAATTACATCGATATGGACGAGTATCCGGTGACCACAGAGCTCCAGgttcgaaaagaaaatatctttcgag-catgactttgcatgttcgcattgttttcttaattggtttttcgtgtgagtggagaaacgctagcgtttttttttctcttaaattaatggttttttgttttgctcgtag

upper sequence: PP1S34_308V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ36644 (Selaginella moellendorffii), 5'ss of exon 2
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgca-ctctacgac-------------------------
 || || ||||||||||| ||||||||||||||| |||||||  | ||||||||||| ||||| || ||||||||||| ||| | ||||| ||||| ||||||  |       |  |||   ||  |   | |  | | |||     |||   |||   |   |  || |       | | ||   ||    ||||   |                          
CACCACTTGGATGGAGCCCGAGTGTGACAAGCTCGTCATGGCCTCGCTCAACAAGAATTACATCGATATGGACGAGTATCCGGTGACCACAGAGCTCCAGgttcgaaaagaaaatatctctcgag-catgactttgcatgtttgcattgttttttttaatggtttttcgtgaaacgctagcgttttttttttctcttaaattaatggttttttgttttgctcgtag

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|18365528|gb|BJ197605.1|BJ197605
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|162279593|gb|FC455865.1|FC455865
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|18349497|gb|BJ181546.1|BJ181546
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|162267344|gb|FC442132.1|FC442132
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|67575429|gb|BJ948253.1|BJ948253
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|18344729|gb|BJ176770.1|BJ176770
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
EST: gi|162188417|gb|FC365015.1|FC365015
EST:     ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAG                         GACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA
genomic: ACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAA

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), 28 (downstream exon)
Score: 8

GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccc ... atttgtgcagGACCGGTGCGTGAACATGGTCGCCCGTTTGTTCAATGCACCAATTGGGGAAGGTGAACAAGCTGTCGGAGCTGGTACAGTGGGATCATCTGAGGCTATCA




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGACATGGATGGAGCCAGAGTGTGACAAGCTCATCATGGCGGCCCTCAACAAGAACTACATTGACATGGACGAGTACCCGATTACCACTGAGCTTCAGgttttagccctttacctcttcagaaactcaattgcggaggttacggctgtagatttctgtcactggtcattgccattttgagtgcattgcactctacgac

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT