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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattattgattgattcatgtgaaataggaactgcacatgcaccgatgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG

Basic information

species Oryza sativa
transcript LOC_Os06g36160.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 2
tattattgattgattcat-gtgaaataggaactgcacatgcaccgatg-tatgtggagtcattg-acatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
    | |   || | ||| |  |   ||    ||    || | | |   | | || | |  |    | | |||    ||  | ||| || |   | ||  ||||| |||||||| || ||||| |||||||| || ||||||||||||||  |||||||||| || ||||||||||| ||||||||||||
--caaatccatgttacattgcaatgcagattttgtgattgaaacaacactgtctgtattggtcctgcttatttttgacaagagtgtgtt-tgggtttctgcagAACGGTCTTGCTACCAAGGTGGAGAAGTCGCGCAAGCAGATGAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGCGGTGTGAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA03G40530.1 (Glycine max), 3'ss of exon 3
--tattattgattgattcatgtgaaataggaactgcacatgcaccgatgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
  |  | ||     |||    |    |  |    |  |   |   |   ||  |  |    ||         |||| |  ||| | |   |||| |   ||||| || |||| |||||||||||| |||||| | ||||| ||||||||  | ||||| ||||| |||||||| || || || ||||||
tctggtctttgagaattataatatcttttggtaaggtctgtcttagccataattacatcattttgtgcaagcgaattaa-aatatctatctattatat-cagAACGGCCTTGACACTAAGGTAGAAAAGTCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGCGGAGTAAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT5G28060.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------tattattgattgattcatgtgaaa--taggaactgcacatgcaccgatgtatgtggagtcattgacat----gtttgaatcactaatgttt--tgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                                           |  || |  ||  |  |  | |    | |    |  |  | ||| | | |  |  ||  || ||   |     | | |  |   |||| ||  || | |  |  ||||||||| |||| ||| ||| | ||||| ||| | || ||||| |||||  |||||||||| || ||||||||||||||||| ||||||
gtaatttctctttacttgtttgatagttaagtaaaacttttggttctagtttttagtctagcttactcttggtgctttgattttcactgctttgcgatgaaacaatggtgttgcaatctcatactgaaatgattgttgatgtgattgacagAATGGACTTGACACCAAGATTGAGAAATCAAGGAAACAGATCAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGTGGTGTTAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G04920.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------------------------------------------tattattgattgattca-----------tgtgaaataggaactgcac---atgcaccgatgtatgtggagtcattgacatgtttgaa-tcactaatgttttgt---tattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                                                                                |||| || |||  | |           | ||  ||| |    | ||   ||       || |  ||| ||  |   ||| |||  | | |   ||| |||||   | |  |   |||||||| |||| ||||||| | ||||||||| | || || || |||||| |||||||||| || ||||| ||||||||||| ||||||
gtaaatgctttttccactcttgtttccattgttatatattgctactcacattgacccgtcttaaatcattactcttgctcattactgtttgtctgaaaattataagctatgtgataagtttcggactttatatcgtattgcacttggtgttctctgcatctttatacttaaacatgctttgtctatgtggttggcagAATGGACTTGACACTAAGATTGAGAAGTCAAGGAAACAAATTAAGGAAAGGAAGAACAGGGCGAAGAAAATCCGTGGTGTTAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S13_236V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------tattattgattgattcatgtgaaataggaactgcac--atgcaccgat-------gtatgtggagtcattgacatgtttga-atcactaat-gttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                                              | |  | |  |  ||||| |  |      || |   ||   | |||       || |||  | |  |  | || |||   ||     || ||||  |  || |   ||||||||||| || || ||||| ||||||||  | |||||||| ||||| || |||||| |  | ||||||||| | ||||||||||||
gtgagattcatcgagacctgattggttcatccggctctgaggttcttgaaaggtcaaggcatgttatttttttgttgaaataatttgctgattggtttggtgtgttcatttgtcaagatctttagtattgaggatagtttaatggttatttgcagAATGGTCTGGCTACCAAGGTCGAGAAGTCGAGGAAGCAGATCAAGGAGCGCAAGAACCGTTCGAAGAAGATCAGGGGTGTGAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ16004 (Selaginella moellendorffii), 3'ss of exon 3
tattattgattgattcatgtgaaataggaactgcacatgcaccgatgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                  ||||  |  |  ||    || |  ||  |  |  | |  ||   |||  |||   ||||    |||| ||| |      ||||| || |||||||| |  |   | || ||  | |||||| | ||||| |||||||||||||| ||||||||||| || |||||||||
------------------gtgagcttagttcttttgattc-tcggcgccttcgcaaaca---acagattt--ctcaccttggtttcgttttctgttccagAACGGACTTGCCACCAGAGAGCAAAAATCGAGGAAGCAGCTCAAGGAGCGGAAGAACAGAGCGAAGAAGATCCGCGGAGTGAAGAAG

upper sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ07954 (Selaginella moellendorffii), 3'ss of exon 3
tattattgattgattcatgtgaaataggaactgcacatgcaccgatgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                  ||||  |  |  ||    || |  ||  |  |  |    ||   |||  |||   ||||    |||| ||| | |    ||||| || |||||||| |  |   | || ||  | |||||| | ||||| |||||||||||||| ||||||||||| || |||||||||
------------------gtgagcttagttcttttgattc-tcggcgccttcgcgagca---acagattt--ctcaccttggtttcgttttccattccagAACGGACTTGCCACCAGAGAGCAAAAATCGAGGAAGCAGCTCAAGGAGCGGAAGAACAGAGCGAAGAAGATCCGCGGAGTGAAGAAG

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|88486338|gb|CI423609.1|CI423609
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88843427|gb|CI372327.1|CI372327
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88501878|gb|CI429384.1|CI429384
EST:     ACAACCTCGACGCCNCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88265890|gb|CI376792.1|CI376792
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88240823|gb|CI238674.1|CI238674
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88204674|gb|CI204523.1|CI204523
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|15850357|gb|BI798633.1|BI798633
EST:     ACAACCTCGACGCCGCCA-GAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88848323|gb|CI086845.1|CI086845
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|4714308|gb|AU058275.1|AU058275
EST:     AACCTCGACGCCGCCAAGAAGTACGAGCCCCAAGTACAGGCTCATCCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACG
genomic: AACCTCGACGCCGCCAAGAAGTACGAG-CCCAAGTACAGGCTCAT-CAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACG
EST: gi|8527927|gb|AU092742.1|AU092742
EST:     ACAACNTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|3767256|gb|AU031366.1|AU031366
EST:     CCAAGAAGTACGANCCCAAGTACAGGCTCATCAGG                         AATGGTCTTNCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: CCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88366065|gb|CI548312.1|CI548312
EST:     GACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: GACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88254045|gb|CI352671.1|CI352671
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86863852|gb|CI332854.1|CI332854
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|89170709|gb|CI039986.1|CI039986
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88209028|gb|CI208877.1|CI208877
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88481214|gb|CI418485.1|CI418485
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGGAGAAGTCACGTAAGCAGATGAAGGAACG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTA-GAGAAGTCACGTAAGCAGATGAAGGAACG
EST: gi|88546275|gb|CI475895.1|CI475895
EST:     ACAACCTCGACCCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88526630|gb|CI454706.1|CI454706
EST:     CCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: CCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88520551|gb|CI448205.1|CI448205
EST:     CGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: CGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86522355|gb|CI162561.1|CI162561
EST:     CAACCTGCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCCCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: CAACCT-CGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88320321|gb|CI523064.1|CI523064
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88527329|gb|CI455476.1|CI455476
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88550462|gb|CI478439.1|CI478439
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88219151|gb|CI220424.1|CI220424
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|89186230|gb|CI262062.1|CI262062
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86493081|gb|CI135714.1|CI135714
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88980167|gb|CI026456.1|CI026456
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|8594842|gb|AU093380.1|AU093380
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCA--                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88519381|gb|CI447035.1|CI447035
EST:     ACAACCTCGACNCCNCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGTTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88239271|gb|CI240433.1|CI240433
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88212728|gb|CI212368.1|CI212368
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88441608|gb|CI554832.1|CI554832
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|3767255|gb|AU031365.1|AU031365
EST:     CAACCTCGACGCCGCCAAGAAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTTCTTGCCACTAAGGTAGGAGAN-TCACGTAAGCA
genomic: CAACCTCGACGCCGCCAAGAA-GTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGT-CTTGCCACTAAGGTAG-AGAAGTCACGTAAGCA
EST: gi|88974571|gb|CI022112.1|CI022112
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCC-AGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86251371|gb|CI055504.1|CI055504
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88208636|gb|CI208485.1|CI208485
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88903251|gb|CI088789.1|CI088789
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88238593|gb|CI238442.1|CI238442
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88382206|gb|CI533410.1|CI533410
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGC                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88456609|gb|CI547325.1|CI547325
EST:     ACAACCTTGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|89196939|gb|CI021779.1|CI021779
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88963510|gb|CI029310.1|CI029310
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88481340|gb|CI418611.1|CI418611
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTGTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGGACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88243696|gb|CI242818.1|CI242818
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86595148|gb|CI260387.1|CI260387
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88482135|gb|CI419406.1|CI419406
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|30229440|gb|CB967331.1|CB967331
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88250996|gb|CI349226.1|CI349226
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86859457|gb|CI278864.1|CI278864
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|86529974|gb|CI170180.1|CI170180
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|58653510|gb|CK042190.1|CK042190
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTC-TGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|87025919|gb|CI282496.1|CI282496
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|38468332|gb|CF952463.1|CF952463
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|8335108|gb|BE040092.1|BE040092
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88471339|gb|CI408610.1|CI408610
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88546309|gb|CI475935.1|CI475935
EST:     ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAATTCACGTAAGCAGATGAAGGAACGG
genomic: ACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
EST: gi|88286602|gb|CI517713.1|CI517713
EST:     CGAGCCCAAGTACAGGCTCATCAGG                         AATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG
genomic: CGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGG

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: 198

CCGCACCCACTTCGGAGGCGGCAAGTCCACCGGATTCGGCCTCATCTACGACAACCTCGACGCCGCCAAGAAGTACGAGCCCAAGTACAGGCTCATCAGGgtacgcacgc ... ttctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG
                             cactaat  putative branch site (score: 198)
                                     ttttgttattctcc  CT-rich tract
                                taatgttttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattattgattgattcatgtgaaataggaactgcacatgcaccgatgtatgtggagtcattgacatgtttgaatcactaatgttttgttattctccacagAATGGTCTTGCCACTAAGGTAGAGAAGTCACGTAAGCAGATGAAGGAACGGAAGAACAGAGCAAAGAAGATCCGTGGTGTGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - tgattca
- - - - - - - - - - - - - -gaactgc
- - - - - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - atgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttga