Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
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 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG

Basic information

species Oryza sativa
transcript LOC_Os04g42380.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G086486_T01 (Zea mays), 3'ss of exon 6
---------gcaagttaacctg-gttgctgggtatcagttctataatgcctcat-----tgggctgtttgttcataaaatta-attttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
         ||||| ||| ||    |  ||| |   | ||    |  || || |        | ||| |||||   || | | | ||| ||| || |  || ||||| |||||||| |||||||| || ||||| ||||||||||| ||||| ||||| |||||||||||||| ||||||||||||||||||||
gtaccagaggcaagctaatcttcaatattggcttgtatttactgatcgcttcgtgccttcatgttgtctgttcgccaactgataatttgttggtgtttgtgtagGTATGAGAAGAGACACTCCAACATCCCTGCGCACATTTCACCATGCTTTCGTGTCAAGGAAGGAGATCATGTGATCATTGGCCAGTGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G086486_T02 (Zea mays), 3'ss of exon 6
gcaagttaacctg-gttgctgggtatcagttctataatgcctcat-----tgggctgtttgttcataaaatta-attttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
||||| ||| ||    |  ||| |   | ||    |  || || |        | ||| |||||   || | | | ||| ||| || |  || ||||| |||||||| |||||||| || ||||| ||||||||||| ||||| ||||| |||||||||||||| ||||||||||||||||||||
gcaagctaatcttcaatattggcttgtatttactgatcgcttcgtgccttcatgttgtctgttcgccaactgataatttgttggtgtttgtgtagGTATGAGAAGAGACACTCCAACATCCCTGCGCACATTTCACCATGCTTTCGTGTCAAGGAAGGAGATCATGTGATCATTGGCCAGTGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA13G23400.1 (Glycine max), 3'ss of exon 4
gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctg----atgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
     ||  ||||    |    |     || | |  ||  |  |  |  |||     |||||    ||||  |||  |  |      | ||||||||||||||||||||| |||||||||||||| || |||||   ||||||||| |||||||| |||||||| || ||||| || |||||
--gtattctcctgccatcctttttagcctttttttttgtttggtatgtttgtagaaacataattacaattccatttttatttttttgttcagGTACGAGAAGAGGCACTCAAATATTCCTGCTCATATATCACCTGCCTTCCGTGTGAAGGAAGGGGATCACGTTATTATTGGTCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA09G12420.1 (Glycine max), 3'ss of exon 4
--gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaatt--ttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
           ||       |||  | ||||| | |  ||  |   ||| | |   ||   |||  ||  ||  ||  | || || ||  || || || ||| | || |||||||||||||| || |  ||||| || ||||||||||| ||||||||||| || || |||||||| |||||
gtattccccttccatacctttggtgagcagttat-tgttgtttacatggacagaa-gtaactaatgtttcttctttgctcattct-atttagATATGAAAAGCGACATTCCAATATTCCTGCACATACATCACCTTGTTTCCGTGTTAAAGAAGGAGATCATGTTATTATTGGCCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA09G12430.1 (Glycine max), 3'ss of exon 4
--gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaatt--ttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
           ||       |||  | ||||| | |  ||  |   ||| | |   ||   |||  ||  ||  ||  | || || ||  || || || ||| |||| || ||||||||| | ||||| ||||| || ||||||||||||||||||||||| || || |||||||| |||||
gtattccccttccatacctttggtgagcagttat-tgttgtttacatggacagaa-gtaactaatgtttcttctttgctcattct-atttagATATGAAAAGCGGCATTCAAATATTCCTTCACACATATCACCTTGTTTCCGTGTTAAGGAAGGAGATCATGTTATTATTGGCCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA17G11430.1 (Glycine max), 3'ss of exon 4
gcaa-gttaacctg--gttgctgggtatcagttctataatgcctcattgggc-tgtttgtt----cataaaattaattttattg--atgctgatgc--agGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
| |   ||  ||||   |   |  || |   || | |  ||  || ||  |  ||||||      |||||   |||||  |||   ||  | ||||  ||||||||||| ||||||||||| ||||||||||| || |||||    |||||||| ||||||||||||||||| || ||||| || |||||
gtattattctcctgcaatccttttgtgttcattttgttttgtttcgttttgtatgtttggagaaacataattataattccattttcatttttatgctcagGTACGAGAAAAGGCACTCCAACATTCCTGCTCATATATCACCTGCTTTCCGTGTGAAGGAAGGAGATCACGTTATTATTGGTCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA01G25840.1 (Glycine max), 3'ss of exon 1
gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattga--tgctg-atgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
                            || |||  | | |  |||   |       ||||| ||   |||| |     || |  ||  || || || ||| | || || |||||||| || ||||| ||||| || |||||||||||||||||||||||                     
--------------------------gtttttattgtacttgcttgca-tacacaaacataacatgttttttctctgcttgttctatttagATATGAAAAGCGTCATTCAAATATTCCAGCACACATATCACCTTGTTTCCGTGTTAAGGAAGGAGATCAT--------------------

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT3G48930.1 (Arabidopsis thaliana), 3'ss of exon 4
gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
| || || |  |   | ||     |   ||| |||  | || |      || | ||| |  ||| |||| |  ||  || |     ||||| ||||||||||| || || ||||| |||||  | ||||| ||||||||||||||||||||||| ||  | ||||||||||| |||||
gtaaattca--tacattctcatacttctttccatagagtcttac-acattgat-gtttaagaaagtaatatcctttttgtt--cttagGTATGAGAAGAGGCATTCAAACATTCCGGCTCATGTCTCACCATGCTTCCGTGTTAAGGAAGGAGACCATATCATCATTGGCCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT5G23740.1 (Arabidopsis thaliana), 3'ss of exon 4
gcaagttaacctggttgctgggtatcagttct--ataatgcctcattgggctgtttgttcat-----aaaattaattttattgatgctgatgc-agGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
| ||||  || | || | ||    |  |||||  |||  ||  |     | | |    |||      | ||   ||| | || |   |      || || |||||||| || ||||| || ||||| ||  | |||||||| |||||||| |||||||| || || || ||||||||||| |||||
gtaagt--acattgt-gatgaacctatgttcttgatagagctgcgcaaagatataacatcaatgctgataaacgattatcttaaatttttcattagATATGAGAAGAGACATTCCAACATCCCTGCCCATGTCTCACCGTGTTTCCGTGTCAAGGAAGGTGACCATGTCATCATTGGCCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT4G30800.1 (Arabidopsis thaliana), 3'ss of exon 4
----gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
         |     | |||  || ||   | |||| | |       |    |  |      | |   |||||  ||            ||| || ||||| || ||||| || |||||||||||  |||| |||||||||||||| || ||||||||||  || | |||||| || |||||
gtaaaaggatcggttttgttattgtgttcaaattctctcagcttatttgaaaccctccagctaaatgcttaatcctac-----------cagATATGAGAAAAGACACTCAAACATTCCTGCTCATGTTTCCCCGTGCTTCCGTGTCAAAGAAGGAGATCGTGTTACCATTGGGCAATGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv04s0008g06220.t01 (Vitis vinifera), 3'ss of exon 4
--gcaagttaacctggttgc-tgggtatcagttctataatgcctcattgggctgtttgtt-cataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
     |    |  |  |||  ||  | |  ||| | |   ||  | ||    ||| ||    |||| ||||| ||   |  ||    |  || || |||||||||||||| ||||| || || || || || || ||||||||||| || || || ||||| || || ||||||||||||||
gtaggaaccgatttaattgaatgaatctttgtttt-tcgggctcctttctcttgtatggaatataatattaaattg--tattgtcactctagATATGAGAAGAGGCACTCAAATATACCAGCACATATATCCCCATGCTTCCGTGTCAAAGAGGGTGATCATGTTATTATTGGCCAGTGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv11s0118g00680.t01 (Vitis vinifera), 3'ss of exon 4
gcaagttaacctggtt---gctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaa------ttttattgatgctg-atgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
||| |||   |  |||   | || | ||  ||  | | |     |   |   |   | ||||   | || |      |||  |   ||||| || ||| || |||||||||||||| || |||||||||||||  || || ||||||||||| |||||||||||||| || || ||||||||||||||
gcatgttcctccagttatagttgtgaatgggtatttttactttccccagaatttgcttttcaagtagttgaccattttttcttctttgctgcattcagATATGAGAAGAGGCACTCAAACATTCCTGCTCACACATCGCCATGCTTCCGTGTGAAGGAAGGAGATCATGTTATTATTGGCCAGTGCAG

upper sequence: LOC_Os04g42380.1 (Oryza sativa), 3'ss of exon 4
lower sequence: EFJ16024 (Selaginella moellendorffii), 3'ss of exon 4
-------------gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
              ||||||   |    |      | ||         || |    | | | |  |  | || ||||||  |||| ||       || |||||| || ||||||||||| ||  |  | |||||  | || |||||||| ||||| |||||||||||| | |||||| | |||||||||||
gtgagtgttaggcccaagttcttccaagtttcttctttcgtcctcgcgattctc--tcgcgattctcatccaaaaaattctttttttt-------attcagGTATGAAAAGAGGCACTCAAACGTGGCAGCTCATGTGTCGCCGTGCTTTCGTGTCAAGGAAGGAGATAAAGTGATCCTCGGCCAGTGCAG

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|33653512|gb|CF276126.1|CF276126
EST:     GTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: GTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88378834|gb|CI681652.1|CI681652
EST:     CCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAAGTAC-AGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTC
genomic: CCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAA-GTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTC
EST: gi|88396239|gb|CI598351.1|CI598351
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCC
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCC
EST: gi|87032308|gb|CI264089.1|CI264089
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88363094|gb|CI616251.1|CI616251
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAA
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAA
EST: gi|15851295|gb|BI799571.1|BI799571
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|29629652|gb|CB634661.1|CB634661
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|33653511|gb|CF276125.1|CF276125
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|58596533|gb|CK007061.1|CK007061
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88531405|gb|CI459878.1|CI459878
EST:     TGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: TGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88511630|gb|CI439136.1|CI439136
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|33655599|gb|CF278213.1|CF278213
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|218494166|gb|FG952748.1|FG952748
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAAAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88381315|gb|CI528295.1|CI528295
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|16576000|gb|BI803296.1|BI803296
EST:     CTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCC-ATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: CTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88451487|gb|CI565540.1|CI565540
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|8404565|gb|AU091919.1|AU091919
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88329106|gb|CI658767.1|CI658767
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACA
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACA
EST: gi|58604496|gb|CK015024.1|CK015024
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|38468664|gb|CF952795.1|CF952795
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|29629653|gb|CB634662.1|CB634662
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|87025487|gb|CI267853.1|CI267853
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88482242|gb|CI419513.1|CI419513
EST:     GGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTCCACCGTGCTTCCG
genomic: GGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88502142|gb|CI429648.1|CI429648
EST:     TTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTCCACCGTGCTTCCG
genomic: TTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88269679|gb|CI380977.1|CI380977
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACAATTTCACCGTGCTTCC
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCAC-ATTTCACCGTGCTTCC
EST: gi|88210358|gb|CI210207.1|CI210207
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|86536606|gb|CI176812.1|CI176812
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|29682482|gb|CB678757.1|CB678757
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|86507806|gb|CI150439.1|CI150439
EST:     ACCATTATTGTTCGGAGGAATAATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88374639|gb|CI518506.1|CI518506
EST:     ACCATTATTTTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|16576855|gb|BI804151.1|BI804151
EST:     CTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: CTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|86901952|gb|CI298599.1|CI298599
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACT
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACT
EST: gi|88991937|gb|CI035075.1|CI035075
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88244088|gb|CI243210.1|CI243210
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88506724|gb|CI434230.1|CI434230
EST:     GAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: GAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88325214|gb|CI646636.1|CI646636
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATT
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATT
EST: gi|86545282|gb|CI185488.1|CI185488
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88571463|gb|CI662836.1|CI662836
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTG
EST: gi|29682483|gb|CB678758.1|CB678758
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88278634|gb|CI399634.1|CI399634
EST:     GGAATTATCTCCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: GGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|86895513|gb|CI331336.1|CI331336
EST:     CACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCCTGCTTCCG
genomic: CACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
EST: gi|88343902|gb|CI654938.1|CI654938
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGG
EST: gi|86512180|gb|CI154813.1|CI154813
EST:     ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAG                         GTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG
genomic: ACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCG

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: 58 (upstream exon), 41 (downstream exon)
Score: 42

TTAGGGGTCGTATCATAGCTGGAACATGTCATAGTGCTAAGATGAACAGGACCATTATTGTTCGGAGGAATTATCTGCACTTTGTCAAGAAGTACCAGAGgcaagttaac ... gctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG
                                            tgctgat  putative branch site (score: 42)
                tgtttgttcataaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagttaacctggttgctgggtatcagttctataatgcctcattgggctgtttgttcataaaattaattttattgatgctgatgcagGTACGAGAAGAGGCACTCCAATATTCCTGCTCACATTTCACCGTGCTTCCGTGTTAAGGAAGGAGATCACGTGATCATTGGCCAGTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA