Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT

Basic information

species Oryza sativa
transcript LOC_Os07g47580.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47580.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G009876_T01 (Zea mays), 3'ss of exon 6
-----tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
       ||||  ||  |  |  || ||||    ||  | |  |     | | |  | | || | | |   ||   ||  ||| |      |  |   ||  ||||||| ||||||||||||||||| ||||| ||||||||||||||| |||| |||||||||||||||||||||||||||||||| ||| |||||||||| ||
tgttccatctgttaagact-tcataaatgttccataaca-tagtacacaacattttcctttggtctgaacaat---atagctgatcttcttttccttgtactcagCCAAGCAGTGGAAGAGAATGGTTACTAAAGCCACCTTTGTTGGAGCTGGATTTACAAGGAAACCACCAAAGTATGAACGGTTCATTCGGCCAACTGGTCT

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G174204_T01 (Zea mays), 3'ss of exon 6
------tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
        |||   ||||   |  || |  |    ||  |  |  |  |  |  | || | || | | |   || |   |  |  |      |    | | | ||||||| ||||||||||||||||| || || ||||| ||||||||| |||| |||||||||||||||||||||||||| ||||| ||| | |||||||| ||
gccttccatctcttaaagagttcataaacttttcataagataggacacacgattttcc-tttgctctgaataatttagctgttcttg-----ttttccctgtacagCCAAGCAGTGGAAGAGAATGGTTACCAAAGCCACTTTTGTTGGAGCTGGATTTACAAGGAAACCACCAAAGTATGAGCGGTTCATTCGACCAACTGGTCT

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv08s0105g00280.t01 (Vitis vinifera), 3'ss of exon 6
tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacg---cttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
  |  |    ||||  |  | || |  |  |   ||    | | ||||  | ||   |||        ||  |  |     | |  || |    ||| ||||||||| ||||||||||| ||||| || |||||||| || || ||||| |  |||||||| ||||| || |||||||| || || ||  | ||  | ||  |
--ttagattgagcatgtgcatatatgctgaaaaggttgagtcacaaacc-caatcccttacctaatgcctcttaacaatctatgtctggcatgtcttttgcagCCAAGCAGTGGAAGAGGATGGTAACCAAGGCCACGTTCGTGGGACCAGCTTTTACAAGAAAACCCCCCAAGTATGAGCGATTCATCCGTCCTTCGGGATT

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ15002 (Selaginella moellendorffii), 3'ss of exon 6
tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggca---tctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
                               ||| || | |      ||  ||  | |||   |      ||| |||  |     ||  |   | |  | |||| |||||||||||| ||||||| ||||| ||||| ||||||||| | || || || ||||||||||||||||| ||  ||||||| || || |  ||  |
-------------------------------gtactgttttctttgtctttcactttttaccggatggtttctcattgttttcttcgcgtcttggtgctccagCTAAACAGTGGAAGCGAATGGTTACTAAAGCCACATTTGTTGGAGCCGGTTTCACGAGGAAACCACCAAAGTACGAGAGGTTTATCAGACCCATGGGGTT

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 3'ss of exon 6
lower sequence: EFJ37687 (Selaginella moellendorffii), 3'ss of exon 6
tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
                               ||| || | |      ||  ||| | | |   |     || |||||  |         ||| | |  ||| |||||||||||| ||||||| ||||| ||||| ||||||||| | || || || ||||||||||| ||||| ||  ||||||| ||||| |  ||  |
-------------------------------gtactgttttctttgtctttcatttttcaccgga----tggtttctcattgttttcttcgcgttt-tagCTAAACAGTGGAAGCGAATGGTTACTAAAGCCACATTTGTTGGAGCCGGTTTCACGAGGAAACCACCGAAGTACGAGAGGTTTATCAGGCCCATGGGGTT

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|86824070|gb|CI260725.1|CI260725
EST:     AAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: AAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|87032604|gb|CI266244.1|CI266244
EST:     TGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|58689868|gb|CK078555.1|CK078555
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33653812|gb|CF276426.1|CF276426
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGGCCACCTTTGTTGGACC
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGG-CCACCTTTGTTGGACC
EST: gi|33688902|gb|CF317141.1|CF317141
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGGAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGGCCACCTTTGTTGGACCTGGG
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGG-CCACCTTTGTTGGACCTGGG
EST: gi|218489658|gb|FG968764.1|FG968764
EST:     GAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGATAAA                         CCATACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: GAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86595161|gb|CI260400.1|CI260400
EST:     AAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: AAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|218487556|gb|FG947559.1|FG947559
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|55408961|gb|CV721337.1|CV721337
EST:     CTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: CTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|12622982|gb|AU173195.1|AU173195
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGA
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGA
EST: gi|218488945|gb|FG960620.1|FG960620
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|29624519|gb|CB629530.1|CB629530
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|22307478|gb|BQ908700.1|BQ908700
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CC-AACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86599846|gb|CI256008.1|CI256008
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|29662524|gb|CB658799.1|CB658799
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGTCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86599387|gb|CI251345.1|CI251345
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         TCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|218483549|gb|FG959691.1|FG959691
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|29668015|gb|CB664290.1|CB664290
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|218489207|gb|FG951304.1|FG951304
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTAGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|29668016|gb|CB664291.1|CB664291
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86499796|gb|CI142429.1|CI142429
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33814059|gb|CF332914.1|CF332914
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGNGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86595303|gb|CI262541.1|CI262541
EST:     AAATGTTCAAAGTTNTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: AAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|8527444|gb|AU092259.1|AU092259
EST:     TGTGGCTGAAGAAG-AATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAN                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|58681353|gb|CK070040.1|CK070040
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|88247740|gb|CI247589.1|CI247589
EST:     AGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: AGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86595320|gb|CI262558.1|CI262558
EST:     GAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: GAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|88216088|gb|CI215937.1|CI215937
EST:     GTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: GTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33657881|gb|CF280495.1|CF280495
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACT
EST: gi|33794028|gb|CF322904.1|CF322904
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGNGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|86492734|gb|CI135367.1|CI135367
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|87022128|gb|CI259200.1|CI259200
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|218480798|gb|FG956053.1|FG956053
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|38469043|gb|CF953174.1|CF953174
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33692111|gb|CF320350.1|CF320350
EST:     TGCGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|58678013|gb|CK066700.1|CK066700
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33813022|gb|CF332401.1|CF332401
EST:     ACGAACTGGCAAGAGAAAAA                         CCAAACAG-GGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: ACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|33809375|gb|CF330567.1|CF330567
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAA
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAA
EST: gi|313079531|gb|HO213089.1|HO213089
EST:     TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: TGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
EST: gi|218500603|gb|FG956643.1|FG956643
EST:     GAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAA                         CCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT
genomic: GAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGT

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), 68 (downstream exon)
Score: 118

GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaac ... gcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT
                               tgctaac  putative branch site (score: 118)
          tgttatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttctgccaaagcagttttacatgtcatctagtagtgatctgagaaactaccatgtgttattaggcatctgatttctgctaacgaatgacgcttatgcagCCAAACAGTGGAAGAGAATGGTCACTAAGGCCACCTTTGTTGGACCTGGGTTTACAAGGAAACCACCAAAGTATGAACGGTTTATTAGGCCAACTGGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
-ttctgcc
- - - - - - - - -ttacatg
- - - - - - - - - - - - - - - - - -tgatctg
- - - - - - - - - - - - - - - - - - - - - -gaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatctg