Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggagcctgggtgctgtatttccatgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC

Basic information

species Oryza sativa
transcript LOC_Os03g11570.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g11570.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G868757_T04 (Zea mays), 3'ss of exon 6
-ggagcctgggtgctg-tatttccatgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC
 |   | | |||  ||   | |   ||   ||||   ||  |||   | |     |    | | |||      | |  |||  || ||         |||||||||||||||| ||||| ||||||||||| |||||||| ||||||||||| |||||||||||||||||||| ||||||||||||||||| ||||| ||||
tgagtctttggttttgacgtgtttgtgtttccattgttt--catttgactgccttgcgtctggtaatccacttgtaacatttttgctttgtttcaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCACGTATCATGGGTCCAGCCTAGAGTGCTTGGAATTCCACAGGTTAAGGCTTTGC

upper sequence: LOC_Os03g11570.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
-ggagcctgggtgctgtatttccatgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattt-tgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC
 | |  || |||      | |   ||   |||||| ||  ||||  | |          | | |||      | |  |||  || ||      |   |||||||||||||||| ||||| ||||||||||| |||||||| |||||||| || || ||||||||||| ||||| |||||||| |||||||| ||||| ||||
tgtaatcttggtttgacgtgtttgtggttccatcattt--catatgactgccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC

upper sequence: LOC_Os03g11570.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA01G01460.1 (Glycine max), 3'ss of exon 5
ggagcctgggtgctgtatttcca----tgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC
      |   |  || |||||      ||||  | | | ||    |   |||   ||  | |||  || ||   |   || | | ||| |        |||||||||||||| || ||||| ||||||||| | || ||  ||||||| ||||| || ||||| ||||| ||||| || || |||| |||| | ||  | || |
----tatcttttttgaatttctgcatttgagaacttgagttttattgtcattcttaacaacattttaaaatttaaagcttgtaagtgaattttttgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTTTCTTGGGTGCAGCCAAGAGTTCTGGGTATTCAACAGATCAAATCCTTAC

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|15848539|gb|BI796815.1|BI796815
EST:     TGATGTGGGAATATCTTCTTATGAAAGA-CCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TGATGT-GGAATATCTTCTTATG-AAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86892494|gb|CI311963.1|CI311963
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89196309|gb|CI397311.1|CI397311
EST:     TCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88840344|gb|CI079798.1|CI079798
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88839891|gb|CI017656.1|CI017656
EST:     TTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88828563|gb|CI073433.1|CI073433
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTNATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89175918|gb|CI042939.1|CI042939
EST:     CTAAGCTTTCTATCAGTGATGTGG-NTATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88839876|gb|CI017641.1|CI017641
EST:     ATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: ATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86479673|gb|CI122306.1|CI122306
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|3760720|gb|C97974.1|C97974
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86414818|gb|CI069221.1|CI069221
EST:     GAAGAGCCTCTCG                         GTTCATCTAATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: GAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86888615|gb|CI305683.1|CI305683
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88841830|gb|CI081086.1|CI081086
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|29673014|gb|CB669289.1|CB669289
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|41882567|gb|BX927984.1|BX927984
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88469323|gb|CI406594.1|CI406594
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86421024|gb|CI057013.1|CI057013
EST:     TCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88964677|gb|CI070023.1|CI070023
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86503584|gb|CI146217.1|CI146217
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89166388|gb|CI103478.1|CI103478
EST:     TCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86866315|gb|CI336934.1|CI336934
EST:     TGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGT-GACAGCACAGTTCACCTG
genomic: TGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86823851|gb|CI258845.1|CI258845
EST:     CTAAGCTTTCTATCAGTGATGCGGAATATCTTCTTATGAAGACCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88490342|gb|CI427614.1|CI427614
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|396941592|gb|HO188249.1|HO188249
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|40492914|gb|BX900508.1|BX900508
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATA
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATA
EST: gi|88674097|gb|CI728210.1|CI728210
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89166556|gb|CI103842.1|CI103842
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88512065|gb|CI439571.1|CI439571
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88838582|gb|CI375130.1|CI375130
EST:     ATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: ATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86489149|gb|CI131782.1|CI131782
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTAATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|86414132|gb|CI068535.1|CI068535
EST:     TTCTTATGAAGAGCCTCTCG                         GTTCATCTNATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88675197|gb|CI729310.1|CI729310
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88831679|gb|CI369361.1|CI369361
EST:     ATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: ATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88269383|gb|CI380681.1|CI380681
EST:     TGAAGAGCCTCTC-                         GTTCATCTTGTAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|33683289|gb|CF311528.1|CF311528
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89190917|gb|CI392770.1|CI392770
EST:     CTAAGCTTTGTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGATGGGGATAATTGATGAGGTGGACAGCACAGTTCACGT
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGA-GGGGATAATTGATGAGGTGGACAGCACAGTTCACGT
EST: gi|94362995|gb|CI053156.1|CI053156
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89186949|gb|CI053352.1|CI053352
EST:     TTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|89179815|gb|CI044094.1|CI044094
EST:     CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTAATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: CTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|88266576|gb|CI377478.1|CI377478
EST:     TATCTTCTTATGAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: TATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
EST: gi|55411721|gb|CV724097.1|CV724097
EST:     GAAGAGCCTCTCG                         GTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG
genomic: GAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTG

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: 75 (upstream exon), 72 (downstream exon)
Score: 41

CCGGGCGTCAGAAGACAGAACTATCCCATTAAGTGTTATAGCCGAGCGCACTAAGCTTTCTATCAGTGATGTGGAATATCTTCTTATGAAGAGCCTCTCGgtaattgcat ... cattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaaaagtaaattggaatatgagagaattattaatgattcccccattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC
                              tattaat  putative branch site (score: 41)
                                       ttcccccattttgc  putative PPT
                         agaattattaatgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggagcctgggtgctgtatttccatgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattttgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC

-gagcctg
- - - - ggtgctg
- - - - - - - - - ttccatg
- - - - - - - - - - - - - - - - - - -gccatac
- - - - - - - - - - - - - - - - - - - - - - - - -aaaagtaa