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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG

Basic information

species Oryza sativa
transcript LOC_Os04g46620.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G110626_T01 (Zea mays), 3'ss of exon 2
attaatgaagttagacttagatcagttctgcaccacacca--atccctgataattccaaaaggttggctggaatgag--ctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
   |   || | |    || || |     |||  |  | |  ||   ||| ||| |       |  |  | |||||   |||||| || | || || |||  ||||||| ||||| ||||| ||||||||||| || || |||||||| ||||||||  | | |||||||||||| ||||| ||||| ||||||
--aagaaaaatcaccgatacat-aaaagagcatgagtctatgatgtatga-aatgcacttcaatcaggagaaatgaaaactaattcagtacattctgcttacagATGCTAGTGGACGATATCGGTGATGTTACAATCACTAATGATGGTGCAACCATACTTAAGATGTTGGAAGTTGAGCACCCAGCTGCCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G039263_T01 (Zea mays), 3'ss of exon 2
attaatgaagttagacttagatcagttctgcaccacaccaatccctg-ataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
|  |  ||| |      ||  | ||  |   |  |  |  ||   || |   | |   ||    |    |    | |||||| |||  ||  |||||  ||||||| ||||| ||||||||||||||||| || || |||||||||||||||||  | | |||||||||||| ||||||||||| ||||||
acgagagaaatagccaatacgtaagagcatgagtat-ctgatgtatgtactgtactctaatcaggagaagcgaaaactaattcagcgcatttttcttacagATGCTAGTGGACGATATTGGTGATGTTACAATCACTAATGATGGAGCAACCATACTTAAGATGTTGGAAGTTGAGCATCCAGCCGCCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G20050.1 (Arabidopsis thaliana), 3'ss of exon 2
attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaa--ggttggctggaatgagcta---attgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
           |||  |||    |  ||||| | | |    ||| |  || || |       |||      |  | | |     ||  |        | ||  ||||| | |||||||||||||||||||| || || ||||||||||| || || ||| | ||||||||||| |||||||| || || || |||
----ccatttctagttttattctaaatctgctcgatattg-tcctttgtattttcgttcctagttcctccaatcgtgtttcatgttatgttggcttgtgtttcagATGTTGGTGGATGATATTGGTGATGTGACTATTACAAATGATGGTGCTACTATTCTTAGGATGTTGGAGGTCGAGCACCCTGCTGCTAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv15s0021g02230.t01 (Vitis vinifera), 3'ss of exon 2
attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaag-gttggctggaa--tgagctaattgagcatatccttc-ttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
 ||      ||     ||  ||  |||  |||       ||   ||| |  ||  || || |||   |  |   ||  || ||   |   ||   |  ||  ||||||| || ||||||||||||||||| || || || |||||||| || || ||  | | |||||||||||| ||||||||||| ||||||
-ttggcagtgtgcatttttaattggtt--gcaaggttttaacttctg-tgcttgtaagagtgttttatacaccctgtacttatgttgttcattgatgatttcagATGCTGGTTGATGATATTGGTGATGTAACAATTACTAATGATGGTGCTACAATACTCAAGATGTTGGAAGTTGAGCATCCAGCTGCCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S39_248V6.1 (Physcomitrella patens), 3'ss of exon 2
-attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
 || |||  |  ||   ||   | | || ||  |      |     || |      |     |    |    |     ||||    || |     ||  ||||||||||||||||||| || || ||||| ||||||||||||||||| |||||||| |  ||| | || || ||||| || || || |||
aataaatatatgtatttttgtctaacttttgagcatttttaggttttggtttgattatgttttcttttttcttttttcaattcttgatgttgga-ttacagATGCTTGTGGATGATATCGGCGACGTTACTATAACAAATGATGGAGCTACCATTTTAAAAATGCTTGAGGTGGAGCACCCCGCTGCTAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S200_112V6.2 (Physcomitrella patens), 3'ss of exon 2
attaatgaagttagactta--gatcagttctgcaccacaccaatccctgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
 | |    ||||   |||    | |           |     ||   | ||   | |  ||  |  ||| || |    |  |    | | |   ||||| ||||| | ||||||||||| |||||||| || ||||||||||| ||||| |||||||| |  ||| | ||||| |||||||| ||  | |||
gtcagcttagtttagcttgtcaacccaaagattgttattttgattgataatgtgttctgaatctgtgctcgattctttt--tctgccctgtggatcttgcagATGTTAGTGGATGATATAGGTGATGTGACTATAACAAATGACGGAGCCACCATTTTAAAAATGCTTGAAGTGGAGCATCCTGCCTCGAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S97_11V6.1 (Physcomitrella patens), 3'ss of exon 2
-----attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaaggttg-gctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
     ||  |||   || | ||  || || || ||    |    || |  |  | | || || |  | |   |  ||| |  |  ||    || |     ||||||||||| |||||||| || ||||| ||||| ||||||||||||||||| || ||||| | |||| | || || |||||||| || ||||||
ctcttatctatgctttttgtctctgaacacttgtgtgaga---taacctttacttaatcaaataactagtatttcaatta--tcgttttctat-tttggattgtagATGCTCGTGGATGACATCGGTGACGTTACGATAACAAATGATGGAGCCACTATTTTAAAGATGCTTGAGGTGGAGCATCCTGCTGCCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ34091 (Selaginella moellendorffii), 3'ss of exon 2
attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
                                            ||  |  || |  |  |||  || |||  | |    || |   |||    | | |||||||||| || |||||||| |||||||| |  || || ||||| || ||||| ||||  ||||| |||||||||||||| || || |||
---------------------------------------gtctgcttcttctttctta--gttttcttgaaaaaacgttctgtg---atctccatcgcagATGCTTGTAGACGATATTGGCGATGTTACAACGACGAACGATGGCGCGACCATCTTGAAAATGTTAGAAGTCGAGCATCCTGCTGCTAAG

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|88726192|gb|CI749847.1|CI749847
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88729781|gb|CI753291.1|CI753291
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88729236|gb|CI752746.1|CI752746
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88728801|gb|CI752311.1|CI752311
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88389824|gb|CI626593.1|CI626593
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88718267|gb|CI741356.1|CI741356
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88576618|gb|CI670763.1|CI670763
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|86826131|gb|CI311004.1|CI311004
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88717868|gb|CI739380.1|CI739380
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88828143|gb|CI778708.1|CI778708
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88358293|gb|CI606802.1|CI606802
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88334889|gb|CI648664.1|CI648664
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGACCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88395151|gb|CI609467.1|CI609467
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88372614|gb|CI610937.1|CI610937
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|13807435|gb|AU181953.1|AU181953
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88738876|gb|CI762384.1|CI762384
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88727969|gb|CI751479.1|CI751479
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88695933|gb|CI739508.1|CI739508
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88424401|gb|CI607987.1|CI607987
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88301610|gb|CI597303.1|CI597303
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGAAAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88350316|gb|CI623254.1|CI623254
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88314778|gb|CI608237.1|CI608237
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88396969|gb|CI578118.1|CI578118
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88425784|gb|CI571684.1|CI571684
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88416925|gb|CI573640.1|CI573640
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88693330|gb|CI736905.1|CI736905
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88426602|gb|CI579431.1|CI579431
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88315088|gb|CI610147.1|CI610147
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88694725|gb|CI738763.1|CI738763
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|58682634|gb|CK071321.1|CK071321
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88727997|gb|CI751507.1|CI751507
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGANAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88354225|gb|CI637791.1|CI637791
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88723173|gb|CI746683.1|CI746683
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88355132|gb|CI651835.1|CI651835
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|29682947|gb|CB679222.1|CB679222
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88407733|gb|CI607867.1|CI607867
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|58653426|gb|CK042106.1|CK042106
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88336708|gb|CI643883.1|CI643883
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
EST: gi|88692280|gb|CI735855.1|CI735855
EST:     CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAG                         ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC
genomic: CGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACC

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: 65 (upstream exon), 73 (downstream exon)
Score: 17

TGGTGGCGTGCCAGGCGGTGGCCAACATCGTTAAGTCCTCGCTTGGGCCCGTGGGGCTCGACAAGgtttgtacct ... cttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG
                            agctaat  putative branch site (score: 17)
                                         tatccttctt  putative PPT
                               taattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attaatgaagttagacttagatcagttctgcaccacaccaatccctgataattccaaaaggttggctggaatgagctaattgagcatatccttcttgtagATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - -ttctgca
- - - - - - - - - - - - - - - - - acaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - tccaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctgg