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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttttgacactgatgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA

Basic information

species Oryza sativa
transcript LOC_Os09g27420.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g27420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G824944_T01 (Zea mays), 3'ss of exon 4
cttttgacactgatgaacatgctgtgggaatggcat-tagacagatacactgaacacata-acattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA---
                 | || |||    ||| | | |     | |    |     |  | ||| ||||||   ||||  |||| |||   | |||   ||||| |||||||||||||| ||||| ||||||||||| ||||| | |||||| || ||||||||||| || ||||||||||| || ||||| || |||||||   
----------------tcttgttgtaaccatgccgtgtgtgttggtctttttggtcctcatacactctgctgacttctcttgaccgacc--cctcccaacaggctGAGAAGCAGATTGAGATGTACACCAAGCAAGGGTTCTCCAGCCTCCCCATTTGCATGGCGAAGACCCAGTACTCGTTCTCACATGTCCCGTCCATGAAGG

upper sequence: LOC_Os09g27420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G824944_T02 (Zea mays), 3'ss of exon 4
cttttgacactgatgaacatgctgtgggaatggcat-tagacagatacactgaacacata-acattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA
               | | || |||    ||| | | |     | |    |     |  | ||| ||||||   ||||  |||| |||   | |||   ||||| |||||||||||||| ||||| ||||||||||| ||||| | |||||| || ||||||||||| || ||||||||||| || ||||| || |||||||
-------------gtatcttgttgtaaccatgccgtgtgtgttggtctttttggtcctcatacactctgctgacttctcttgaccgacc--cctcccaacagGCTGAGAAGCAGATTGAGATGTACACCAAGCAAGGGTTCTCCAGCCTCCCCATTTGCATGGCGAAGACCCAGTACTCGTTCTCACATGTCCCGTCCATGA

upper sequence: LOC_Os09g27420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA20G38740.1 (Glycine max), 3'ss of exon 4
cttttgacactg-atgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgct--gactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA
    | | | || ||  |  || | |   | |      | | ||||    |          ||  ||        ||| |  |  |   ||   ||    ||||| |||||||||||||| ||||||| ||||||||| || |||   || |||||||||||||| || |||||||| || || ||  |   | |  |    |
---ataaaagtgcatataattgttatttaactaaatacaaagagattttttctttttgatgcaccctatgaccacctgtttggcattcttgttgtctaaccagGCTGAGAAGCAGATTGAGATGTATAGCAAGCAAGGATTTTCAGGTCTTCCAATATGCATGGCTAAGACTCAGTATTCTTTCTCAGACAATGCTGCAGCAA

upper sequence: LOC_Os09g27420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA10G44010.1 (Glycine max), 3'ss of exon 4
cttttgacactgatgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgact-tccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA
  ||||  |   |   |||    |      |  | ||       |  | || || ||   | ||   |   |     ||| |   ||   | ||    ||||| |||||||||||||| ||||||| ||||||||| || |||   || ||||| |||||||| || |||||||| || || ||  |   | |  |    |
tatttgttaactaaatacaaagagattttctctcttttttactgtttaatggacgcacc-ctttgaccaccacctgtctggcattcttgttgtctaaccagGCTGAGAAGCAGATTGAGATGTATAGCAAGCAAGGATTTTCAGGTCTTCCAATCTGCATGGCTAAGACTCAGTATTCTTTCTCAGACAATGCTGCAGCAA

upper sequence: LOC_Os09g27420.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT1G50480.1 (Arabidopsis thaliana), 3'ss of exon 4
-------cttttgacactga--tgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA
        ||   | || ||  |   ||   | |  | || |   |  | ||| || |||   |  |||| || |   |||| ||| |||       |      | ||||| ||||| |||||||| ||||| ||  | ||||||||||| || || || ||||||||| ||||||| |||||||| || || |||| | |||| | ||
gtgattgattcctagaccgacttcttcaatttctttgcattgttgtcaaaagaaac-ctgtttatgtaac-ttatctattatcctg-tgatatgtaaa-----atacagGCAGAGAAACAGATTGAGATGTACACACAACAAGGCTTCTCGAATCTTCCCATATGCATGTCGAAAACACAGTACTCATTCTCACATGATGCATCAAAGA

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|88230844|gb|CI228749.1|CI228749
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCTAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|89185730|gb|CI047599.1|CI047599
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|89175593|gb|CI042614.1|CI042614
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|89181222|gb|CI045305.1|CI045305
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|88848798|gb|CI087320.1|CI087320
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87010814|gb|CI312506.1|CI312506
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|89167684|gb|CI018487.1|CI018487
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86878187|gb|CI319518.1|CI319518
EST:     TACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: TACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86479520|gb|CI122153.1|CI122153
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTTTCTAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86520152|gb|CI160358.1|CI160358
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         TCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|88229202|gb|CI229078.1|CI229078
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|88847240|gb|CI011183.1|CI011183
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86596852|gb|CI270648.1|CI270648
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|89186145|gb|CI048014.1|CI048014
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86489497|gb|CI132130.1|CI132130
EST:     GCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: GCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86520089|gb|CI160295.1|CI160295
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|58666858|gb|CK055544.1|CK055544
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|66914737|gb|CX101585.1|CX101585
EST:     TCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACNNTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCC
genomic: TCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATAC--TCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCC
EST: gi|88198843|gb|CI197240.1|CI197240
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAGACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87014954|gb|CI271553.1|CI271553
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|15854645|gb|BI807457.1|BI807457
EST:     TCTATGGTGCTA-CGGCGTTGAATACTCTGAACA-                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCC-
genomic: TCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86513763|gb|CI156396.1|CI156396
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86514267|gb|CI156900.1|CI156900
EST:     AGTCTATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATTGTATACCAAGCAAGGCTTCTCAAACCTCCC
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAA-TGTATACCAAGCAAGGCTTCTCAAACCTCCC
EST: gi|86517622|gb|CI157828.1|CI157828
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87023249|gb|CI272077.1|CI272077
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87027711|gb|CI274275.1|CI274275
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTCCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86518078|gb|CI158284.1|CI158284
EST:     AGTCCATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCC
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86260824|gb|CI000272.1|CI000272
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|58689176|gb|CK077863.1|CK077863
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86436750|gb|CI118472.1|CI118472
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86517665|gb|CI157871.1|CI157871
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87040006|gb|CI194628.1|CI194628
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86414579|gb|CI068982.1|CI068982
EST:     CGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: CGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87014014|gb|CI273204.1|CI273204
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86427774|gb|CI072871.1|CI072871
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86524750|gb|CI164956.1|CI164956
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCGTTCTCAAACCTCCC
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGC-TTCTCAAACCTCCC
EST: gi|86514666|gb|CI157299.1|CI157299
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86432666|gb|CI086277.1|CI086277
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|87031734|gb|CI272435.1|CI272435
EST:     AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: AGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
EST: gi|86525063|gb|CI165269.1|CI165269
EST:     TAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAG                         GCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA
genomic: TAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCA

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), 74 (downstream exon)
Score: 98

CCCTCTGAAATTTTTGTATCCTTTAGAATCTGGCATAAAGGAGAAGATTGAGTCAATAGCTAAGTTCTATGGTGCTAGCGGCGTTGAATACTCTGAACAGgtatccttgc ... ttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acactgaacacataacattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA
                                      gactgac  putative branch site (score: 98)
                                            cttccgt  CT-rich tract
           ataacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttttgacactgatgaacatgctgtgggaatggcattagacagatacactgaacacataacattctgctttattctgctgactgactgacttccgtgcagGCGGAGAAGCAGATTGAAATGTATACCAAGCAAGGCTTCTCAAACCTCCCAATATGCATGGCGAAAACTCAGTACTCGTTTTCGCATGTTCCATCCATGA

- - - - -ctgatga
- - - - - - - - -catgctg
- - - - - - - - - - - - - - - tggcatt
- - - - - - - - - - - - - - - - - - - - - gatacac
- - - - - - - - - - - - - - - - - - - - - - - - - gaacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgactg