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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag

Basic information

species Zea mays
transcript GRMZM2G030169_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g36650.1 (Oryza sativa), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctg-ttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
|||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||| ||||| |||||||| |||||||||||||  | || || ||| || | |  ||||  || |||  |||| | || || | |||  |    ||     || | ||            ||| |||||| ||                                    
GCCAAGCAGCATGAAGATCAAGGTTGTCGCTCCGCCAGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTTGCATCTCTGAGCACCTTCCAGCAGgtaatgcaaaatcatccaacagttaattcttgatacactttcta-gattgttcgagaaggt---tcttgacatatgtttctttcct-----tttttttgtgcag------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G39380.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||| ||||| || ||||| || ||||| ||||| ||||| |||||||||||||||||||| |||||||| ||||| ||||||||||| |         ||    |   |  ||| | ||||||   | |    ||| |    ||   | |      | |  |||| |                                                         
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTTTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattgttttgtttattgcaaattatctct-tccaca-cgtgtaccaattagattgaactaaacatgttttggttttgcag---------------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgta-acaccaa-gtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggt-ttatttgtgaagcta---ctctgacattaagtccatcttttccctgtgcag
 || || |||||||| |||||||| || || || || ||||| |||||||||||||||||||| || || ||| | ||||| || ||||| ||||| |||||    ||  | || ||    | ||| ||||  |    |   |    ||| ||  |  || |  |    |   |  | ||  |||    |||| ||   |||| |  |    |||| | ||  ||                    
ACCCAGTAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGTTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgtactgatgtttttttcctgctattctcaacatccccccctcatttgttcttacaagtaaaatgta---ttagtttatggaaggcaggtattgagtgtgtactttgttctcttatatgtag--------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaac-accaagtcttccgacggct-gttctgtatc-cacaatctatgtttatttg--tgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||| ||||| || ||||| || ||||| ||||| |||||||||||||||||||||||||| || ||||| ||||| ||||||||||| |      ||| |         | | ||| |  | ||    | | ||  |||    |  || |  |   || | |  ||||  | ||                                                       
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTCTGGATTGGAGGATCAATCCTTGCGTCCCTCAGCACCTTCCAGCAGgtgattgtttagtttattacaaattagctctttgacgcatgtgccaagtagattgaatttgaactctagaacatgttttggttttgcag-------------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaac-accaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||| ||||| || ||||| || || || || || |||||||||||||||||||||||||| |||||||| ||||| ||||||||||| |  |     || |      ||| ||  || |   | || |   || | | |  ||||   |  |   |||    |||| |                                                         
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattttatcatgaattagctctttcgtgtgtgccattttcattgaat-gctaaaaaaaatgttgtggt---tttgcag---------------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa-gtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||| ||||| || ||||| || || || || || |||||||||||||||||||||||||| |||||||| ||||| ||||| ||||| |  |     || |      ||| |||  | |   | || |   || |||  | ||||   |  |   |||    |||| |                                                         
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtgattcttttatcattaattagctcttccatgtgttccattttcattgattgctaaaaa---atgttgtggt---tttgcag---------------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgta-acaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggttt--atttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || ||||||||||| |||||||| || || || || ||||| |||||||||||||||||||| || || ||| | ||||| || ||||| ||||| |||||    ||  |   ||    |  |  | || |   ||  |||     |      |       | |||    ||    || |    |||| || |   ||| || |     |      || | |   |  | |   | |||||
ACCCAGCAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGCTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgtactgatgttttttcc--ccctcctattctcaacatcccccctcccacct-----cccccctttatgtgtacttacaagtaaaatgtattagtttatggaaagcattgagtgtttactttgttctctta-tatgcag

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggtt-gcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||| |||||||| || || || |||||||||||||||||||||||||| || || ||||| || ||||| ||||| ||||||||||||| |        ||       |  |  || |   |    | || ||  ||      |  || |||     | ||||  |         || | | ||||    || || |                            
CCCGAGCAGCATGAAGATTAAGGTCGTGGCACCACCCGAGAGGAAGTACAGTGTCTGGATTGGTGGTTCTATCCTTGCTTCCCTCAGCACTTTCCAGCAGgtaaaattggactgtc-----atttctaagtttttgcttcttgtggttgattaaatgtagacaactcctctaatggtttacattttctgtgtgtgtgtgtgtgtgtaatcag----------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaa-gctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||||||||| || || ||||| ||||| || |||||||||||||| |||||||||||||| |||||||| ||||| ||||| |||||||    || ||      | ||   | |  | |     |  |  |  |||| |||||      |    |  |   |   | |     | ||| ||||||   |  | || |                            
ACCTAGCAGCATGAAGATCAAGGTGGTTGCACCGCCAGAGAGAAAATACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtaa----aaatcccaattccgcctctttaaaact----ttcagctccatttatgaaa------catgagtgaaaatactgaaattttgttttgtttgtgtgtgtgaatcag----------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT3G18780.2 (Arabidopsis thaliana), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 ||||||||||||||||| |||||||| || || || || |||||||||||||||||||| || || || || || || ||||| |||||||||||||||||||    || |    |      ||||  | || | |         |||  ||  ||| || |    | ||  |  |      | | | |||  ||   |                                       
ACCAAGCAGCATGAAGATTAAGGTCGTTGCACCACCTGAAAGGAAGTACAGTGTCTGGATCGGTGGTTCCATTCTTGCTTCCCTCAGCACATTCCAGCAGgtaa----aaattgatcagattttgtttcgaattctc---------ttacatgc-aaattgaaatcaaaggctgattatttatgtatatgttggttacag---------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtag--ggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||||||||| || || || || ||||| |||||||||||||||||||||||||||||  | ||||| || ||||||||||| ||||||| |  || | ||           | |||  |||  || |  ||  | |  |    | | |  |   | | |   ||  | |||      |  ||||   ||  | |                                
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCTCCCGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATATTAGCATCTCTCAGCACATTCCAACAGgtaaaa--aattgtttta--------tttgtgcccatgatgtgggtggaatgatagtcaaggagtttgtgattgttagtctcagagtctcattccattta-aaaattgcag------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 5
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||||||||| || || || || ||||| ||||||||||||||||||||||||||||| || |||||||| ||||| ||||||||||| |     | | ||        || | | ||   |   | |   | | ||  ||   |||   || ||       |||  |  | |                                                    
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCACCTGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATTCTTGCATCCCTCAGCACCTTCCAGCAGgtgattttcatttttt--gtttttggtttttacaaatggtttgattcttttattgc--atgatactaacatgctttttgttggtacag---------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa-gtcttccgacggctgttctgtatccacaatct-atgtttat-ttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 |||   ||||||||||| ||||| || || ||||| ||||||||||||||||| ||||| ||||| || ||  | ||||| || || || ||||| ||||||   |     | || |    |||    || || || ||||| || ||||| ||       ||||  | |     |  ||  |  |    ||  | ||||                                         
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtatttcttttatattacagttgcttagttgcatgcataatctgatttttatattacttttttgcattttat--ctgcattttgacgtgttggggtttttgcag--------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 5
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgc--acctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag---
 |||   ||||||||||| ||||| || || ||||| ||||||||||||||||| ||||| ||||| || ||  | ||||| || || || ||||| |||||||     | |   |    | |||   || ||      | | | ||||| | |  |  |       ||     | | | |||        |  | |      |     ||||  ||| | ||| | |  |   ||||  |   
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtaatgt--atttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgt------aatctttctggaatttaatccgtttacttgttgtggtgcag

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttc-cgacggctgttctgt-atccacaatctatgttta---tttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
|||    ||||||||||||||||| || || || ||||||||||||||||| || ||||| ||||| || ||| | |||||||| ||||| ||||||||||||| ||  ||| | |  ||    |  |  ||    |    |  || || |   | | |  |  |     ||    |  |  |  |     |  | ||  ||     | |  |   ||||   ||   |||||     ||||||
GCCGTCAAGCATGAAGATCAAGGTGGTGGCGCCTCCGGAGAGGAAGTACAGCGTGTGGATCGGAGGCTCCATCTTGGCATCCCTCAGCACCTTCCAGCAGgtaa-actgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgcacatattgt---tctttctgtggtgcag

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacacca-agtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||||||||| || ||||| ||||||||||||||||| |||||||||||||| || ||||| || || || ||||| ||||| |||||| ||| | | ||||  |   | | |||| ||||  |    | | ||| ||| |      |   ||| | |                                                                    
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATTGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttct-tatcagc--cttgtttttcttttt-----cgtttctcgcag--------------------------------------------------------------------

upper sequence: GRMZM2G030169_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacacca-agtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag
 || |||||||||||||||||||| || ||||| ||||||||||||||||| |||||||| ||||| || ||||| || || || ||||| ||||| |||||| ||| | | ||||  |   | | |||| ||||  |  | | | | | ||| |      |||                                                                            
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATCGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttct-tatcagccttgtttttctttttcttttttcgcag---------------------------------------------------------------------------

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|20803178|gb|BQ294228.1|BQ294228
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|20512924|gb|BQ280110.1|BQ280110
EST:     GTGTCTGGATTGGAGGATCAATCCTAGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|21891511|gb|BQ744724.1|BQ744724
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|26456801|gb|CA828384.1|CA828384
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|20507635|gb|BQ279710.1|BQ279710
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|26456536|gb|CA828119.1|CA828119
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|78543597|gb|DV621095.1|DV621095
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|26456715|gb|CA828298.1|CA828298
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60353096|gb|DN220069.1|DN220069
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60399040|gb|DN231856.1|DN231856
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|20512925|gb|BQ280111.1|BQ280111
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|21809467|gb|BQ667785.1|BQ667785
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|21828671|gb|BQ703355.1|BQ703355
EST:     GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC

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: 48 (upstream exon), 49 (downstream exon)
Score: 76

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACTCCTCGTGGAAATGCCTTTGTTTCATG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 68

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACTCCTCGTGGAAATGCCTTTGTTTCATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 83

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACTCCTCGTGGAAATGCCTTTGTTTCATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 38

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACTCCTCGTGGAAATGCCTTTGTTTCATG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCGCCGGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTCGCATCCCTGAGCACATTCCAGCAGgtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaagctactctgacattaagtccatcttttccctgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT