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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag

Basic information

species Zea mays
transcript GRMZM2G082484_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g36650.1 (Oryza sativa), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggcta-ttctgtatctactatctgagtctattttgtgaagttct-gacataagt---tcttgttttccctgtgcag
|||||||||||||||||||||||| |||||||| |||||||||||||||||||||||||| |||||||||||||||||||| |||||||| || ||||||||||  | || |  |||  | | || ||||  ||  ||| |||   | | ||     | ||||| |||||| ||   | |  ||||   |||||||
GCCAAGCAGCATGAAGATCAAGGTTGTCGCTCCGCCAGAGAGGAAGTACAGTGTCTGGATTGGAGGATCAATCCTTGCATCTCTGAGCACCTTCCAGCAGgtaatgcaaaatcatccaacagttaattcttgatacactttctagat-tgttcgagaaggttcttgacatatgtttctttccttttttttgtgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G39380.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||| ||||| || |||||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||| ||||| || |||||||| |        |||   ||   |  ||| | || || |  ||   | |||   |  |  |   | | | ||| | ||||| |        
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTTTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattgttttgtttattgcaaattatctct-tccac-acgtgtaccaattagattgaact---aaacatgttttggttttgcag------

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgta-acaccaa-gttttccggcggctattctgtatctactatctgagtctattttgtgaagttctg-acataagttcttgttttccctgtgcag----------------------------
 || || |||||||| |||||||| || || || || ||||| ||||||||||||||||| || || || ||| | ||||| || ||||| || || |||||    ||  | |||||    | ||||||||  |  | |   |    | | || |   ||||       || ||||  ||     |  ||   |                            
ACCCAGTAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGTTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgtactgatgtttttttcctgctattctcaacatccccccctcatttgttcttacaagtaaaatgtattagtttatggaaggcaggtattgagtgtgtactttgttctcttatatgtag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||| ||||| || |||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||| ||||| || |||||||| |        |||    |    |||   | | |      || | | | |   |  | ||   ||   ||  | ||||||   | |||||
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTCTGGATTGGAGGATCAATCCTTGCGTCCCTCAGCACCTTCCAGCAGgtgattgtttagtttattacaa--attagctctttgacgcatgtgccaagtagattgaatttgaactctagaacatgttttggttttgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaac-accaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||| ||||| || ||||||||||| || || || ||||||||||| ||||||||||||||||||||||| ||||| || |||||||| |  |     |  |      ||| ||  || | | | ||         |||  |  | | || | | || |    ||| |   | |||||
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattttatcatgaattagctctttcgtgtgtgccat---------tttcattgaatgctaaaaaaaat----gttgtggttttgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||| ||||| || ||||||||||| || || || ||||||||||| ||||||||||||||||||||||| ||||| || || ||||| |       || |        || |  |  ||| | || ||   |  |||  |  | | || | | | ||| | ||||| |        
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtga-------ttcttttatcattaattagc-tcttccatgtgttccattttcattgattgctaaaaaatgttgtggttttgcag------

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgta-acaccaag---ttttccggcggctattctgtat-------ctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag---------------------------------
 || ||||||||||| |||||||| || || || || ||||| ||||||||||||||||| || || || ||| | ||||| || ||||| || || |||||    ||  |    ||||||  |  |||||||  |        || | | ||    |  || |||| | ||   |  |||  | |  |  |   ||   ||                                 
ACCCAGCAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGCTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgtactgatgttttttccccctcctattctcaacatcccccctcccacctcccccctttatgtgtacttacaa-gtaaaatgtattagtttatggaaagcattgagtgtttactttgttctcttatatgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttc-cggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag----------------
 || |||||||||||||| |||||||| || ||||| ||||||||||||||||||||||| || || || |||||||| ||||| ||||| || |||||||||| |      | ||    |     || ||  |||  |   ||| |  || | |  || | ||   ||  |||    |||||  ||||                   
CCCGAGCAGCATGAAGATTAAGGTCGTGGCACCACCCGAGAGGAAGTACAGTGTCTGGATTGGTGGTTCTATCCTTGCTTCCCTCAGCACTTTCCAGCAGgtaaaattggactgtcatttctaagtttttgcttcttgtggttgattaaatgtagacaactcctctaatg-gtttacattttctgtgtgtgtgtgtgtgtgtaatcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtg-aagttctgaca-taagttcttgttttccctgtgcag---------
 || |||||||||||||||||||| || || || |||||||| || |||||||||||||||||||||||||||||||||||||| ||||| || || |||||||    || |       | ||   | |  | ||   | ||   | |||        |||    | | | |  | |||||||   ||||            
ACCTAGCAGCATGAAGATCAAGGTGGTTGCACCGCCAGAGAGAAAATACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtaa----aaatcccaattccgcctctttaaaactttcagctccatttatgaaacatgagtgaaaatactgaaattttgttttgtttgtgtgtgtgaatcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT3G18780.2 (Arabidopsis thaliana), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctact---atctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 ||||||||||||||||| |||||||| || ||||| || ||||||||||||||||||||||| || || || ||||| ||||| |||||||| ||||||||||    || ||   | |    | ||  | ||   ||   ||   | |  |  |       |  | |  || ||   ||||       | |||
ACCAAGCAGCATGAAGATTAAGGTCGTTGCACCACCTGAAAGGAAGTACAGTGTCTGGATCGGTGGTTCCATTCTTGCTTCCCTCAGCACATTCCAGCAGgtaa----aaattgatcagattttgtttcgaattctcttacatgcaaattgaaatcaaaggctgattatttatgtatatgttggt----tacag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagtttt-ccggcggctattctgtatctactatctgagtctat---tttgtgaagttctgacataagttcttgttttccctg-----tgcag
 || |||||||||||||||||||| || || || || ||||| ||||||||||||||||| |||||||||||  | ||||| || |||||||| || ||||||| |    |||||    | | | ||  |||   |   ||   |||| |    |||||||   |  | |  |   |||  ||     |      |||||
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCTCCCGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATATTAGCATCTCTCAGCACATTCCAACAGgtaaaaaattgttttatttgtgcccatgatgtgggtggaatgatagtcaaggagtttgtgattgttagtctcagagtctcattccatttaaaaattgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 5
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctatt-ttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||||||||| || || ||||| ||||| ||||||||||||||||| ||||||||||| ||||||||||| ||||| || |||||||| |     | ||||   |    |  | | ||   |   | ||| ||| || |||     | || ||||   || |||||    | |     
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCACCTGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATTCTTGCATCCCTCAGCACCTTCCAGCAGgtgattttcatttttt--gtttttggtttttacaaatggtttgattcttttattgcatgatactaacatgc-tttttgttggtacag-----

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 5'ss of exon 4
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa-gttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag------------
 |||   ||||||||||| ||||| || || || |||||||||||||||||||| ||||| ||||| || ||  | ||||| || || || || || ||||||   |     | || | |  |||    || ||  |  ||||||   | || | | |  || |  |||    |||   |||    |||  |            
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtatttcttttatattacagttgcttagttgcatgcataatctga--tttttatattacttttttgcattttatctgcattttgacgtgttggggtttttgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 5
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacat----aagttcttgt-tttccctgtgcag------------------------------------------
 |||   ||||||||||| ||||| || || || |||||||||||||||||||| ||||| ||||| || ||  | ||||| || || || || || |||||||     | ||  |  | | ||    || || |  | | |   | ||| |  | | ||  |    |    || | || |  |||  |   || |                                          
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtaatgt--atttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatctttctggaatttaatccgtttacttgttgtggtgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcgg----ctattctgtatctactat---ctgagtctatttt--gtgaagttctgacataagttcttgttttccctgtgcag-----------------------------------------
|||    ||||||||||||||||| || || || || |||||||||||||| || ||||||||||| || ||| | |||||||| ||||| || |||||||||| ||  ||||| |  |       |||   || |  |  ||     |||   | ||||  || |      |  ||  |    |||||     |    |                                         
GCCGTCAAGCATGAAGATCAAGGTGGTGGCGCCTCCGGAGAGGAAGTACAGCGTGTGGATCGGAGGCTCCATCTTGGCATCCCTCAGCACCTTCCAGCAGgtaa-actgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgcacatattgttctttctgtggtgcag

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||||||||| || ||||| || |||||||||||||| |||||||| ||||| || ||||| || || || ||||| || || |||||| ||| |  || |   ||   | ||   ||||  |  | |   ||| ||| ||    ||||  ||                        
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATTGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttcttatcagccttgtttttctttttcgt----ttctcgcag-----------------------

upper sequence: GRMZM2G082484_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 3
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag
 || |||||||||||||||||||| || ||||| || |||||||||||||| |||||||||||||| || ||||| || || || ||||| || || |||||| ||| |  || |   ||   | ||   ||||  |  | |   ||| |||  |    || |  ||                        
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATCGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattcttttgctcgtttttcttatcagccttgtttttctttttctt----ttttcgcag-----------------------

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|14204329|gb|BG838006.1|BG838006
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|211300455|gb|FL250329.1|FL250329
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60359517|gb|DN226490.1|DN226490
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|31348984|gb|CD433341.1|CD433341
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60358334|gb|DN225307.1|DN225307
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|37379842|gb|CF626687.1|CF626687
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|4887481|gb|AI677580.1|AI677580
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60400077|gb|DN232884.1|DN232884
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60357867|gb|DN224840.1|DN224840
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60343768|gb|DN210741.1|DN210741
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|32865330|gb|CF005012.1|CF005012
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|31360215|gb|CD444572.1|CD444572
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|37400372|gb|CF637536.1|CF637536
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|4388081|gb|AI491253.1|AI491253
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|24768569|gb|CA403698.1|CA403698
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|211284920|gb|FL438507.1|FL438507
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|31628111|gb|CD526447.1|CD526447
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|120479756|gb|EH210626.1|EH210626
EST:     TGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: TGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|60350429|gb|DN217402.1|DN217402
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|40337529|gb|CK371599.1|CK371599
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|37393901|gb|CF634217.1|CF634217
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
EST: gi|16926209|gb|BM079277.1|BM079277
EST:     GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAG                         ATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCAC
genomic: GTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... 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: 230

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACCTAGCCTTAATTCTCCTCTGGAAATAC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 983

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACCTAGCCTTAATTCTCCTCTGGAAATAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 644

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACCTAGCCTTAATTCTCCTCTGGAAATAC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 276

GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaa ... ccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACCTAGCCTTAATTCTCCTCTGGAAATAC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCAAGCAGCATGAAGATCAAGGTCGTCGCTCCACCAGAGAGGAAGTACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTGAGCACATTTCAGCAGgtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT