Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtatacttagcataggtcttatcatgatgtttgactgaaatctgaggcccttacgccatttcctttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA

Basic information

species Oryza sativa
transcript LOC_Os04g46620.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G039263_T01 (Zea mays), 3'ss of exon 16
gttggtatacttagcataggtcttatcatgatgtttgactgaaatctgag----gcccttacgccatt--tcctttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGC--ATTGACACTCA
||| |    ||| |  |   |||  ||||| | ||||  |||  ||||||      ||  |  ||  |  ||  |  | || |  |||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||| ||||| ||||||||    || ||||||||||||  |||  |     | |  
gttaggcctctt-gtttctttctcgtcatggtatttg--tgatgtctgagttttatcccaattccgatcatctatcctgttcctgttgcagTTTGCCACGGAGGCTGCCATTACTATCCTGAGGATTGACGACATGATCAAGCTTACCAAGGAAGAAGAGGGTAACGAAGAGTAAGCAGCCCACCAGTAGT--

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GLYMA08G12970.1 (Glycine max), 3'ss of exon 16
gttggtatacttagcataggtcttatcatgatgtttgactgaaatctgaggc--ccttacgccatttcct----------ttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA
     | || ||||   |     |||||   |  ||||||  ||| |   ||  |||||| |   | | |          ||||||| |     |||||||| ||||| || ||||||||||||||  | ||||||||||||||||| ||||  ||||| || ||    || || || |||     |     |   |
--gtatgtatttagttaaa----tatcacagttgttgacttcaatatacagcttccttacacagctgcgtgagctagaagtttttttacttccccagTTTGCAACTGAAGCTGCCATTACTATCCTTCGAATTGATGACATGATCAAGCTTATCAAGGATGAAAGTCAAAATGAGGATTAAAGTATAACTGAATCTA

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 16
lower sequence: PP1S200_112V6.2 (Physcomitrella patens), 3'ss of exon 16
----------------------------------------------------------------------------------gttggtatacttagcataggtcttatcatgatgtttgactgaaatctgaggcccttacgccatttcctttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA
                                                                                   ||| | |   ||   |  |  | ||     || |     |   | | ||  | |  |   || |    |   | |   ||||||||||| ||||| || || ||||| |||||  | ||||||||||||||||||||    ||||| ||    ||  |        | ||       | |   |
gtaagaaacatgtgcttttgaaagattcccttttaatatatgaagattttttgacagatatgtactgtctcgtttctggatcattgttctttgtatgttgaggttaattgctctggtgtgtgggggtgtaagatcat-gcctgatgtgacatcggtattttttgcagTTTGCAACTGAAGCTGCAATTACAATCCTACGAATTGATGACATGATCAAACTGTTCAAGGAGGAAGATGGTGATCGGTGACATCACTTTCGCAGAAGGA

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|88997478|gb|CI390144.1|CI390144
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88225655|gb|CI225571.1|CI225571
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86436363|gb|CI118085.1|CI118085
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86492587|gb|CI135220.1|CI135220
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88903572|gb|CI089110.1|CI089110
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88447250|gb|CI533891.1|CI533891
EST:     TGAGCCAGCAATGAGTAAAGTAAAGATCATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89177229|gb|CI043732.1|CI043732
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88411623|gb|CI521346.1|CI521346
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86862059|gb|CI330661.1|CI330661
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGA-GATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88832860|gb|CI369750.1|CI369750
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|163920836|gb|EG710073.1|EG710073
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86484007|gb|CI126640.1|CI126640
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89180642|gb|CI044921.1|CI044921
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88447221|gb|CI533862.1|CI533862
EST:     TTGAATATGGTGTCATTGANCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88505175|gb|CI432681.1|CI432681
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86428465|gb|CI075146.1|CI075146
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88829575|gb|CI074445.1|CI074445
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89166896|gb|CI104182.1|CI104182
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|24208452|gb|AU225479.1|AU225479
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88228255|gb|CI227735.1|CI227735
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88304662|gb|CI520517.1|CI520517
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86485127|gb|CI127760.1|CI127760
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|38476533|gb|CF960666.1|CF960666
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86870800|gb|CI323844.1|CI323844
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88907485|gb|CI090279.1|CI090279
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89198641|gb|CI016726.1|CI016726
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88956051|gb|CI092339.1|CI092339
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86845109|gb|CI341049.1|CI341049
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|58677940|gb|CK066627.1|CK066627
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88365788|gb|CI545647.1|CI545647
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86494033|gb|CI136666.1|CI136666
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86486137|gb|CI128770.1|CI128770
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86600235|gb|CI355992.1|CI355992
EST:     TTGAATATGGTTTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|8335302|gb|BE040286.1|BE040286
EST:     GCAATGAGTAAAGTAGAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: GCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89180482|gb|CI044761.1|CI044761
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88375084|gb|CI523349.1|CI523349
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATCATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88988240|gb|CI036200.1|CI036200
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88831678|gb|CI369360.1|CI369360
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88453426|gb|CI563305.1|CI563305
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86425678|gb|CI070775.1|CI070775
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|218501195|gb|FG961294.1|FG961294
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86435769|gb|CI107002.1|CI107002
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89173763|gb|CI041656.1|CI041656
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88218354|gb|CI218203.1|CI218203
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88380590|gb|CI521159.1|CI521159
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88382470|gb|CI535678.1|CI535678
EST:     CAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: CAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88520709|gb|CI448363.1|CI448363
EST:     AGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: AGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88850339|gb|CI091832.1|CI091832
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88484466|gb|CI421737.1|CI421737
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88471453|gb|CI408724.1|CI408724
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89193987|gb|CI116424.1|CI116424
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86432447|gb|CI086058.1|CI086058
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86503826|gb|CI146459.1|CI146459
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89180541|gb|CI044820.1|CI044820
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88464606|gb|CI534743.1|CI534743
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88478777|gb|CI416048.1|CI416048
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86514608|gb|CI157241.1|CI157241
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86415390|gb|CI069793.1|CI069793
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88264403|gb|CI368177.1|CI368177
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88488232|gb|CI425503.1|CI425503
EST:     TATGGTGTCATTGAGCCAGCAATGAGTAAANTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88275256|gb|CI395860.1|CI395860
EST:     TTG-ATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|58595799|gb|CK006327.1|CK006327
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATT
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATT
EST: gi|86873191|gb|CI328571.1|CI328571
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|89175490|gb|CI042511.1|CI042511
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88833940|gb|CI077421.1|CI077421
EST:     TTGAATATGGTGTCATTGAGCCAGCAGTGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|88831794|gb|CI369476.1|CI369476
EST:     TTGAATATGGTGTCATTGAGCCACCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGCCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86495901|gb|CI138534.1|CI138534
EST:     TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
EST: gi|86483920|gb|CI126553.1|CI126553
EST:     TTGAATATGGCGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAG                         TTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA
genomic: TTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAA

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: 74 (upstream exon), 75 (downstream exon)
Score: 59

CATGGGTCTTGACCTTTCAAAAGGTATCATTCGCAACAACCTTGAATATGGTGTCATTGAGCCAGCAATGAGTAAAGTAAAGATTATTCAGgttggtatac ... tcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttgactgaaatctgaggcccttacgccatttcctttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA
                     cccttac  putative branch site (score: 59)
                     cccttacgccatttcc  CT-rich tract
                               atttccttttttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggtatacttagcataggtcttatcatgatgtttgactgaaatctgaggcccttacgccatttcctttttttttcccttgcagTTTGCCACTGAGGCGGCCATTACTATCCTGAGGATTGATGACATGATCAAACTTACGAAGGAAGAGAGCGGGAACGAAGAGTAACAAGCATTGACACTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA