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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag

Basic information

species Zea mays
transcript GRMZM2G006765_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||||||  ||| ||||| |||    |||     | |||   |||| ||  |||| |  | ||    ||    ||     |||||               ||| || ||||||||||
ACCAAGCAGCATGAAGATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGGTCCATCCTTGCCTCCCTTAGCACCTTCCAACAGgt--aaaccttacgcctacactttatgaggtagcaagaatg-caggtatttctgctttctgttaacatca-----ttctt--------------ttggcatctatgctacag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G39380.1 (Glycine max), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| || ||||| ||||| || || ||||| || || ||||| ||||| |||||||| |||||||| ||||| ||||||||||| ||||| |              || |||| |||         || |||||| |  |       ||   || ||| |    |   ||||||  |||| | |||| ||   |      
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTTTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtga--------------ttgttttgttt---------attgcaaat-tatctcttccacacgtgtaccaattagattgaactaaa--catgttttggttttgcag------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttt--tatttgcagc--tgcaatggcaaatattgcaacctttcagtagttccagtatcttct-------tactaaaaacatgctctggtatttatgctacag
 || || |||||||||||||||||||| ||||| |||||||| || |||||||||||||| || || || ||| | || || || ||||||||||||||||||   | || |    |||||  |  ||||  || |    |     ||  | ||   ||   | |   ||   ||| | |          || | |     | || || | | |    |  ||
ACCCAGTAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGTTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgta-ctgatgtttttttcctgctattctcaacatccccccctcatttgttcttacaagtaaaatgtattagtttatggaaggcaggtattgagtgtgtactttgttctcttatatgtag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| || ||||| ||||| || || ||||| || || ||||||||||| |||||||| |||||||| ||||| ||||||||||| |||||    |   |  |  || ||    ||| ||   |    || |  || |  |||       |||| |  | | |   ||     | |||||| | |||| ||   |      
TCCTAGCAGCATGAAGATTAAGGTTGTGGCTCCACCAGAGAGAAAGTATAGTGTCTGGATTGGAGGATCAATCCTTGCGTCCCTCAGCACCTTCCAGCAGgt---gattgtttagtttattacaaattagctctt----tgacgcatgtgccaa-------gtagattgaatttgaact---ctagaacatgttttggttttgcag------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaactta-cacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| || ||||| || || || || || || ||||| ||||||||||| |||||||| |||||||| ||||| ||||||||||| ||||| |  |  ||| ||    ||   |  || |    ||| ||       |||| ||   |  |  |  |   ||   ||   |                               
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattttatcatgaattagctctttcgtgtgtgccatttt---cattg-aatgctaaaaaaaatgttgtggttttgcag------------------------------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| || ||||| || || || || || || ||||| ||||||||||| |||||||| |||||||| ||||| ||||||||||||||||| |          | ||| |  ||| ||    || | |||     | || ||   ||||| |  ||              ||||||| ||| | |||| ||   |      
TCCTAGCAGCATGAAGATTAAGGTTGTAGCTCCACCAGAAAGAAAATATAGTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtga--------ttcttttatcattaattagctcttccatg-----tgttcca--ttttcattgatt-------------gctaaaaa-atgttgtggttttgcag------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacaccttttt----ttttatttgcagc-tgcaatggcaaatattgcaacctttca-gtagttcca--------gtatcttcttactaaaaacatgctctggtatttatgctacag---------
 || ||||||||||||||||||||||| ||||| |||||||| || |||||||||||||| || || || ||| | || || || ||||||||||||||||||   | || |    ||||     |  ||||  || | | |     |  |  |  |  | ||    ||| || ||        ||||    |||   ||| |||    || |   | || |             
ACCCAGCAGCATGAAAATCAAGGTGGTTGCACCTCCTGAGAGAAAGTACAGTGTCTGGATTGGTGGCTCTATCTTGGCATCACTTAGCACCTTCCAACAGgtttgta-ctgatgttttttccccctcctattctcaacatcccccctcccacctcccccctttatgtgtacttacaagtaaaatgtattagtttatggaaagcattgagtgtttactttgttctcttatatgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgcta-cag
 |||||||||||||| || ||||| |||||||| || |||||||| |||||||||||||| || || || |||||||| ||||| ||||| ||||| |||||  |||| |      |  ||| | | ||   ||| |  | |    |  |  ||  | |    |  |||  ||     ||||        ||     || | | ||  | |||
CCCGAGCAGCATGAAGATTAAGGTCGTGGCACCACCCGAGAGGAAGTACAGTGTCTGGATTGGTGGTTCTATCCTTGCTTCCCTCAGCACTTTCCAGCAGgt--aaaattggactgtcatttctaagtttttgcttc--ttgtggttgattaaa--tgtagacaactcctctaatggtttacattttctgtgtgtgtgtgtgtgtgtaatcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacaccttttttttta---tttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| ||||||||||| |||||||| ||||| ||||||||||||||||| |||||||| |||||||| ||||| ||||||||||||||||| |||| |  |   |    | ||||    || ||||| || |    ||   ||     |   | || |   | | | || |   |       ||     |              
ACCTAGCAGCATGAAGATCAAGGTGGTTGCACCGCCAGAGAGAAAATACAGTGTCTGGATCGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAACAGgtaaaaatcccaattccgcctctttaaaactttcagctccatttatgaaacatgag---tgaaaatactgaaattttgttttgtttgtgtgtgtgaatcag--------------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT3G18780.2 (Arabidopsis thaliana), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| || ||||| || ||||| ||||| ||||| |||||||||||||| || || ||||| ||||| ||||| ||||| ||||| ||||| ||||     ||  |||| |||    | |   | || ||  || |      |        |  ||   |||| |  |   || |                          
ACCAAGCAGCATGAAGATTAAGGTCGTTGCACCACCTGAAAGGAAGTACAGTGTCTGGATCGGTGGTTCCATTCTTGCTTCCCTCAGCACATTCCAGCAGgtaaaaattgatcagattttgtttcgaattctcttaca-tgcaaattgaaatcaaaggctgattatttatgtatatgttggttacag-------------------------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| ||||||||||||||||| || ||||| || |||||||||||||| |||||||| ||  | || || || ||||| ||||||||||| |||||          || |||||||||   |    |||     |      |   |  || ||||   |  | ||  |   | |  |    ||   | |  |   | |||
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCTCCCGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATATTAGCATCTCTCAGCACATTCCAACAGgtaaaaaa----------ttgttttatttgtgcccatgatg-tgggtggaatgatagtcaaggagtttgtgattgttagtctcagagtctcattcca-tttaaaaattgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 5
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| ||||||||||||||||| |||||||| || |||||||||||||| |||||||| || ||||| ||||| ||||||||||| |||||     | || ||  |||||| || || |    | |||  |     |||      || || |  | | |  ||  | ||  |    |||                      
TCCCAGCAGCATGAAGATCAAGGTGGTGGCACCACCTGAGAGAAAGTACAGTGTCTGGATTGGAGGATCAATTCTTGCATCCCTCAGCACCTTCCAGCAGgt----gattttca--ttttttgtttttggtttttacaaatggtttgattcttttattgca-tgatactaacatgctttttgttggtacag---------------------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 5'ss of exon 4
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttt-tttatttgcagctgcaatggcaaatat-tgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 ||    |||||||| || ||||||||||| ||||| |||||||| |||||||| ||||||||||| || ||  | || || || || ||||||||||||||       ||| |      ||  ||| |||||     |||   |  | | |   || |||  | | ||    ||||| | |  | |   | || |  ||| |||         
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtatttcttttatattacagttgcttagttgcatgcataatctgatttttatattacttttttgcattt----tatctgcattttga---cgtgttggggtttttgcag-----

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 5
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagct---gcaatggcaaatattgcaacctttcagtagttccagtatctt---cttactaaaaacatg----ctctggtatttatgctacag----------------
 ||    |||||||| || ||||||||||| ||||| |||||||| |||||||| ||||||||||| || ||  | || || || || |||||||||||||| |   | ||    ||  | | | | |||||  |   |   |     || |    |  | |  ||   | ||    ||     ||    |     |      ||||| |||||  |                     
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtaatgtatttga--ctcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatctttctggaatttaatccgtttacttgttgtggtgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaa--aaacttacacctttttttttatttgcagctgcaatggcaaatattgcaa--cctttcagt----------agttccagtatcttcttactaaaaacatgctctggtatttatgc-tacag-----------------
||||   |||||||| |||||||||||||| || || |||||||| ||||| || ||||| ||||| |||||| | || ||||| ||||||||||| ||||| ||   |  || ||   | |||| ||  |    |     ||| |||||||| |   | |||||||          | ||  ||||| ||   |         |  |  ||| |||   | ||  |                 
GCCGTCAAGCATGAAGATCAAGGTGGTGGCGCCTCCGGAGAGGAAGTACAGCGTGTGGATCGGAGGCTCCATCTTGGCATCCCTCAGCACCTTCCAGCAGgtaaactgagtttgcatgatattttctacgttggac----gtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgcacatattgttctttctgtggtgcag

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| ||||||||||| || || || |||||||| ||||| |||||||| ||||| || ||||| || || || |||||||||||||||||   | |   |||   ||||  |  |||     |   ||      | ||      ||||  |  |  |||                                         
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATTGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccaca---acattcttttgctcgttt----ttcttatcagccttgtttttctttttcgtttctcgcag-----------------------------------------

upper sequence: GRMZM2G006765_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 3
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag
 || ||||||||||| ||||||||||| || || || |||||||| ||||| |||||||| ||||| || ||||| || || || |||||||||||||||||   | |   |||   ||||  |  |||     |   ||      | ||      ||||  |  |  |||                                         
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATCGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccaca---acattcttttgctcgttt----ttcttatcagccttgtttttctttttcttttttcgcag-----------------------------------------

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|32865167|gb|CF004849.1|CF004849
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|15589987|gb|BI674603.1|BI674603
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|40335388|gb|CK369458.1|CK369458
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|6696055|gb|AW289163.1|AW289163
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCCCCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|78117774|gb|DV536161.1|DV536161
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|6056880|gb|AW091285.1|AW091285
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|6223802|gb|AW154933.1|AW154933
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|7135193|gb|AW497977.1|AW497977
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|32865274|gb|CF004956.1|CF004956
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|8318625|gb|BE025370.1|BE025370
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|211170934|gb|FL481186.1|FL481186
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|45847060|gb|CN071003.1|CN071003
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|8576946|gb|BE129583.1|BE129583
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|113701192|gb|EE678696.1|EE678696
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|71315361|gb|DR794284.1|DR794284
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|60401170|gb|DN233977.1|DN233977
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|60359273|gb|DN226246.1|DN226246
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|37382768|gb|CF628348.1|CF628348
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|18176206|gb|BM351242.1|BM351242
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|32870150|gb|CF009832.1|CF009832
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|32865331|gb|CF005013.1|CF005013
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|4646699|gb|AI491559.2|AI491559
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTACAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
EST: gi|15554174|gb|BI644172.1|BI644172
EST:     GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAG                         ATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT
genomic: GTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCAT

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), 48 (downstream exon)
Score: 136

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 106

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 85

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 594

GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaact ... tatgctacagATGTGGATCTCAAAGGCTGAGTATGACGAGTCAGGACCTGGGATTGTTCATCGGAAGTGCTTCTAAGCTCTGGGTCCCCCTTCGGCTCCATTTTATTTAT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCGAGCAGCATGAAAATCAAGGTGGTGGCACCGCCTGAGAGGAAATACAGTGTCTGGATAGGAGGATCCATCCTTGCCTCCCTGAGCACCTTCCAACAGgttaaaaacttacacctttttttttatttgcagctgcaatggcaaatattgcaacctttcagtagttccagtatcttcttactaaaaacatgctctggtatttatgctacag

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