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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt...

Basic information

species Zea mays
transcript AC209208.3_FGT002
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g44630.2 (Oryza sativa), 5'ss of exon 3
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt---
||| || ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||  ||||  |||         |  | |||  |  |    ||||     || |  | || |        |  ||      ||| | | ||| |     
TGACGGTCTTGGTGCTGAGATTGTTGGCACCTTCATCCTGGTCTACACCGTCTTCTCAGCCACTGATGCCAAGAGGAATGCCAGGGACTCACATGTTCCTgtaagtatccttctcctttttgcagtgtgatatgtgaaagttcagtagt---agttagtgtggtctaatgagttatgcactgtgataactaattcatcaccaa

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G02530.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttc---ccttttcctagtttgttcagttgtta-tagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt
|||||||||||| || |||||||||||||| || || || || ||||| |||||||| ||||| ||||||||||| || || || ||||| || || || |||  || |  ||  |||    |  | | ||  || || ||  | | |       ||  |  |   ||||   |||||  |  || | |  |  || | |||| 
TGATGGCCTTGGAGCCGAGATTGTTGGCACTTTTATTCTTGTTTACACTGTCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctatttatcatctttattctctcttctcattcgtgcaactttaagccaaagtgtgtaaacaggttta--ttagc-taggtagaagagagagactaaact-

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA14G06680.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttccc--ttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacata--tatgtaattgaatcaactt
|||||| ||||| ||||||||||||||||| |||||||| || |||||||| ||||| ||||||||||||||  | |  ||||| |||||||| || || |||||    | |||  | |    ||  | |   |||||   || |||||    ||     ||   ||   |  ||    ||||    |  |  |   | ||   
TGATGGTCTTGGTGCTGAGATTGTTGGCACTTTCATCCTTGTTTACACCGTTTTCTCCGCCACCGATGCCAAACGTAGCGCCAGAGACTCCCACGTCCCCgtaagcctccctcccttccgaaattccctttaattgtttt-ttattataaaattgaccccat-gcttaaacagagatttcataatcttccatatatgttaaa--

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G35030.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatat-----atgtaattgaatcaactt-------------------------
|||||| ||||| ||||||||||||||||| ||||| || ||||||||||| ||||| ||||||||||||||| | |  || || ||||| || || |||||| || |    || |||| ||| ||  |   | |  | ||   ||     |||    | |   ||   |    |||  |||     ||| || ||||| ||                            
TGATGGACTTGGTGCTGAGATTGTTGGCACTTTCATTCTTGTCTACACCGTTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcatgccctcttctcttgtctcataatatataattaacatg--catgcaaaaaattacttaaatagatacatgtatgattcatggaactgaatgaatcaatgaatcaatgaatcaaatgatcag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G42220.3 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttccc-----ttttcctagtttgttcagtt-gttatagttctgcttggattagtttggcttagcacacatatatgtaa-ttgaatcaactt----
|||||| ||||| ||||||||||||||||| ||| |||| || |||||||| ||||| ||||||||||||||  | || ||||| ||||| || || || |||||  | |  ||   |  |     | |   || ||  ||   || |||| |       |   |||  | |||  ||  ||  |  | |||   ||||||  |       
TGATGGTCTTGGTGCTGAGATTGTTGGCACTTTCGTCCTTGTTTACACCGTTTTCTCCGCCACCGATGCCAAACGTAACGCCAGAGACTCTCACGTCCCCgtaagccccccaccctctgtcgaaaatctctttaattgctttttttcgttaaaaaaaaaatactatttttgtggactaa-acctaattgtgtgggttgaatatatgagtag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G37730.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaag---tactcttccacttcccttttcctagt-ttgt-tcagttgttatagttctgcttg--gattagtttggcttagcacacatatatgtaattgaatcaactt--------------------------
|||||| ||||| ||||||||||||||||| ||  | || ||||||||||| ||||| ||||| ||||||||||| || || || ||||| || ||||||||| |   ||||||| |  || ||       | | |||  |   ||    || ||  ||||    || ||| |   ||   ||     ||| ||||    | || ||                          
TGATGGACTTGGAGCTGAGATTGTTGGCACTTTTGTTCTTGTCTACACCGTTTTCTCTGCCACTGATGCCAAGAGAAACGCTAGAGACTCACACGTTCCTgtatgctatactctttccttttccccactacaatattgcattcattccattaatttggcttataaatgagtatatattctgactttgttat-taatgtggttaatttatgatggtatgatataataattgtag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G01860.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactctt--ccacttcccttttcctagtttgttcagttgttatagttc-tgcttggat-tagtttggcttagcacacatatatgtaattgaatcaactt------------------
|||||| ||||| ||||||||||||||||| ||  | || ||||||||||| ||||| ||||| ||||||||||| || || || ||||| || ||||||||| ||| ||||  ||||| |  | || ||  ||  |||   |  | | |||  |   ||| | || | || ||| | |   |     || | || || |   |                  
TGATGGACTTGGAGCTGAGATTGTTGGCACTTTTGTTCTTGTCTACACCGTTTTCTCTGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTTCCTgtatgtattctttcccactacaatattgcttattcattccactaatttggtttataaatggctatattctgactttgtaattaatgtggttaatgtatgatgctatgatataataattgtag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G42950.1 (Glycine max), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttt---tcctagtttgttcagttgtta-tagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt
|||||||||||| |||||||||||||||||||| || || || |||||||||||||| ||||| ||||||||||| || || || ||||| || ||||| |||   | || ||  ||| | | |   | ||  ||||| ||  | | |       ||  |  |   ||||   |||||  |  || | |  ||  | |||    
TGATGGCCTTGGAGCTGAGATTGTTGGCACCTTTATTCTTGTTTACACCGTCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTTCCGgtacccattcatcatctttcttctctcttctcatttgtgcaactttaagccaaagtgtgtaaacaggttta--ttagc-taggtagaagagataaactcacta-

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: Vv15s0046g02420.t01 (Vitis vinifera), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt--
 ||||| ||||| |||||||| |||||||| ||  | || |||||||| || ||||| || || ||||||||||| |||||||| ||||| ||||| |||||||||| | | || | |    |   ||  | |||     ||  |||  | || || | ||  |    || |        ||| ||||    ||  | ||  
CGATGGGCTTGGTGCTGAGATAGTTGGCACTTTTGTTCTTGTCTACACTGTTTTCTCTGCAACTGATGCCAAGAGAAATGCCAGAGACTCACATGTCCCTgtaagtattttccctcattgtatcatctc-tctgtatgtatgc-atatgtgtggtttgttttatagatctaactttgtcaataggtaaagcgattgagttct

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: Vv02s0025g03390.t01 (Vitis vinifera), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttc--tgcttggattagtttggcttagcacacatatatgtaattgaatcaactt
|||||||||||| ||||||||||||||||||||| | || || ||||| |||||||| || || ||||||||||| || ||||| ||||| || || |||||| ||| |||   | |||  |||  | | ||  |       |  | |||   |  |  ||||    |  | | | |  | ||| | |  ||   ||   ||
TGATGGCCTTGGTGCTGAGATTGTTGGCACCTTCGTTCTTGTTTACACTGTCTTCTCTGCTACTGATGCCAAGAGAAACGCCAGAGACTCTCACGTCCCTgtatgtattctcttatttc--tttctcaacttcatgagaccatccttgtttcatattatgattttactttccttggaatcttattttttgttttttctcatt

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt-
|| ||| ||||| |||||||| |||||||| ||  | || |||||||| ||  |||| || || ||||||||||| |||||||| ||||| |||||||| ||||||| |||  | ||     | |  ||  |   |  || | | | ||| | | |   |   | |   ||         ||  ||||    ||  |  | 
TGCTGGGCTTGGTGCTGAGATAGTTGGCACTTTTGTTCTTGTCTACACTGTTCTCTCTGCAACTGATGCCAAGAGAAATGCCAGAGACTCACATGTTCCAgtaagtattctctctctgtgtatata-tacataaatatgtgggttttgttttacatatctagttatatatttctttgtcaattggtaaagtgattgagctg

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt---------------------------------------
 ||||| ||||| ||||||||||||||||||||| |||| |||||||| |||||||| ||||| || |||||| | || || || |||||||| || ||||||||  || | |  ||  |  | |     ||| |     | | |   |    |    | |   |    ||  ||   |  ||  |||||  ||   |||                                       
AGATGGGCTTGGTGCTGAGATTGTTGGCACCTTCGTCCTTGTCTACACTGTCTTCTCCGCCACTGACGCCAAGCGTAACGCTAGAGACTCCCACGTCCCTgtaag--ctatacatctctctgtctttctctttctcagactctcacgatcacccactcaatcactcactttgtcatcaagttaattaatt--attgcctttgtcggtgtgggtgatgtattattttgaatgtgttaaag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: PP1S1_535V6.2 (Physcomitrella patens), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactct-----tccacttcccttt--tcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt------------------
 |||||| | ||||||||||| || ||||| ||| | || || ||||| || ||||| ||||||||||||||| | |||||| | ||||| ||||| || || ||||| ||     |||  | |  ||   | |||| ||     |        || |||  || ||   |    ||   ||||  || |||   |  ||   |                     
CGATGGCTTGGGCGCTGAGATCGTGGGCACGTTCGTGCTGGTGTACACTGTGTTCTCCGCCACCGATGCCAAGCGCAATGCCCGTGACTCTCATGTGCCGgtgagtacactccgtttccggtgcagttcagttctagattaccgcgcctgagacgtgctggctg-atctttggtactcctcacagttagatggtctcaaaatgatgctcttcgatggacttgcag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: EFJ18960 (Selaginella moellendorffii), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttat--agttctgcttggattagt-ttggcttagcacaca-tatatgtaattgaatcaactt-------------------------------------------------------------------------------------------
 ||||| ||||| |||||||||||||| |||||| | || |||||||| |||||||| ||||| ||||||||||| | |||||| ||||||||||| || ||| ||    |    | |||       | |||  |||   | | ||  |||| |||||   ||  | ||  |||         | |   || ||       ||                                                                                            
AGATGGTCTTGGAGCTGAGATTGTTGGTACCTTCGTTCTCGTCTACACGGTCTTCTCCGCCACTGATGCCAAGAGAAGTGCCAGAGACTCCCATGTCCCGgtacgtttcttcttccatccaaagctttggttgattcccctctcatgaagttttgcttttcttcttcttatcttcttgtgtggttttcctagtttttcttgctgtacttcctcttatcttctccttatctcttctcctcctcatggatagatttaagatatgttccaagctcacaaactttggcgatttctacag

upper sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 2
lower sequence: EFJ11572 (Selaginella moellendorffii), 5'ss of exon 2
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcc----cttttcctagtttgttcagttgttatagttctgcttggattagt-ttggcttagcacaca-tatatgtaattgaatcaactt-------------------------------------------------------------------------------------------
 ||||| ||||| |||||||||||||| |||||| | || ||||||||||||||||| ||||| ||||||||||| | |||||| ||||||||||| || ||| ||         | |||    ||||   |  ||    |   |  |  |||| | |||   ||  | ||  |||         | |   || ||       ||                                                                                            
AGATGGTCTTGGAGCTGAGATTGTTGGTACCTTCGTTCTCGTCTACACCGTCTTCTCCGCCACTGATGCCAAGAGAAGTGCCAGAGACTCCCATGTCCCGgtacgtttctccttccatccaaagctttggttgattcccccctctcatgaagttttacttttcttcttcttatcttcttgtgtggttttcctagtttttcttgctgtacttcctcttatcttctccttatctcttctcctcctcatggatagatttaagatatgttccaagctcacaaactttggcgatttctacag

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|149094560|gb|EE180082.2|EE180082
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGGTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|101393809|gb|EB818837.1|EB818837
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGGGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|213172229|gb|FM182804.1|FM182804
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|148980603|gb|EE027230.2|EE027230
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTNGGTTCGCGGTGTTCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCC
EST: gi|148936933|gb|EC881089.2|EC881089
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|211307685|gb|FK967576.1|FK967576
EST:     TTCTCAGCCACCGATGCCAAGAAGAATGCCAGGGGACTCCCNATGTTC-T                         ATCCTTGCCCCACTGNCCA-TTGGGGTTCGCGGTGTTCCTGGGTC-ACCT
genomic: TTCTCAGCCACCGATGCCAAGAGGAATGCCAGGG-ACTCCC-ATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTG-CCAATTGGG-TTCGCGGTGTTCCTGG-TCCACCT
EST: gi|148982069|gb|EE028110.2|EE028110
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|148970221|gb|EE021158.2|EE021158
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGGTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|149046894|gb|EE048104.2|EE048104
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|149094855|gb|EE180429.2|EE180429
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|148937476|gb|EC881659.2|EC881659
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
EST: gi|148954456|gb|EC899880.2|EC899880
EST:     TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCT                         ATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC
genomic: TCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCC

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1216

TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1536

TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2011

TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1826

TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactc ... gtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGCCTTGGCGCTGAGATTGTTGGCACCTTCATCCTAGTCTACACCGTCTTCTCAGCCACCGATGCCAAGAGGAATGCCAGGGACTCCCATGTTCCTgtaagtactcttccacttcccttttcctagtttgttcagttgttatagttctgcttggattagtttggcttagcacacatatatgtaattgaatcaactt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA