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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA

Basic information

species Oryza sativa
transcript LOC_Os01g36920.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G088218_T02 (Zea mays), 3'ss of exon 11
------gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
        |  |   ||||||  |||| | ||   || |     |  |||  ||| | | ||  ||| |||       ||||  ||  ||||||| || || || |||||||||||||||||||| |||||||||||||| || |||||||| |
gtttgtacttttgacattgattctttttacttatatgatctgacgtcgtactaaatcatgaccataaattc-tgcatctgatacttacagGTGCAGGAGAGGTTTGAGGTTGACATAAAGGAGCTGCCTGAGCAGATTGACACGTCGACATACA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA04G07180.1 (Glycine max), 3'ss of exon 10
gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
  |||   |||| ||  | |||| ||| ||  |||| || | || | |        | ||||||    |  |||   ||   |||| ||    || || ||||| || |||||| |||||||||||||||||||||| || || ||||
-gtag-ggaattaattttgttaactttttt--ttaa-tgttatacccatttgcatttctaatttgtgtttgatggatttcacagGTTCAGTCTAGGTTTGAGGTGGATATAAAGCAGCTTCCTGAGCAGATTGATACCTCTACCTATA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA07G03530.2 (Glycine max), 3'ss of exon 9
--------------------------------------------------gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaattt-cacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
                                                   || | | ||| ||  |    |||   |   | ||  |  |  ||||  ||||     |||        |  | | || | | ||||||||   || || |||||||||||||||||||||||||| || ||||| |||||||||||||
gttagaccctacttccatggagattttaggaatatttcttttgtactgccattgggaaaatggagaag--gaatcaaggcacgta--ttctccaacagtgccttttattaacaagtttctatacgctgatgtcagGTGCAATCTAGGTTTGAGGTTGACATAAAGGAGCTTCCTGAACAAATTGACACTTCGACATATA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA08G22570.2 (Glycine max), 3'ss of exon 10
----------------------------------------gttagtataattgatcattttaattttgtt----gcttaactggtgta-acaaagcctcactgtaattt-cacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
                                          || |   ||||   | |  |    |  |    ||     |  |  | |||  || |     | ||       |  ||| || ||| ||||||||   || || |||||||||||||||||||||||||| || ||||| ||||| |||||||
gttagaccccacttccatggagatttaggaacatttcctttgtactgccattgggaaatggagaagtaatcaaggcacgttttctccatacagtgctttttattgataagtttctatatgctgatttcagGTGCAATCTAGGTTTGAGGTTGACATAAAGGAGCTTCCTGAACAAATTGACACTTCAACATATA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: AT5G11170.1 (Arabidopsis thaliana), 3'ss of exon 10
------------gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
             |   | ||||   ||     ||   |  |  | || | | ||     |   | | |  | |  ||  |  |     |    |||| ||||| || || |||||||| |||||||| ||||| ||||||||||||||||| || || |
gtatggtgttcaatctttgtaataagtccacggaaaactcctcttgaaattgagt--tggatatttagtaaagtggcaattataaatcttggacagGTACAAGAGAGGTTTGAGGTTGATATAAAGGAACTTCCGGAGCAGATTGATACTTCAACCTACA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: AT5G11200.3 (Arabidopsis thaliana), 3'ss of exon 12
-----------gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgtttta-agGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
           | |  | ||||  ||    |  |    ||  |     |  ||          | | |  | |  ||  |  |  |||||  | |||| ||||| || || ||||| || ||||||||||||||||||||||||||||| ||||| || |
gtatggtgtttgatcttttaataaattccatggaaaaagtccccatgatattgagttgggtatttagtaaagtggcaagtata-aatgttggacagGTTCAAGAGAGGTTTGAGGTCGATATAAAGGAGCTTCCTGAGCAGATTGATACATCGACTTACA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv09s0002g06660.t01 (Vitis vinifera), 3'ss of exon 10
--------------gttagtataattgatcattttaattttgttgct-taactggtgtaacaaagc--ctcactgtaatttcacatgcatga---tgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
               ||| | |  | |     |  | |||  | | | ||  |  | |       |  ||     ||||   | ||  |  |   || ||| |||| || || || || ||||| || |||||||| ||||||||||| ||||||||||| ||||| |
gtttgcaagccatctttattttggtggg--ggtacagtttcttggttatattttatcttgttggtctgcttgtcttaatccgagatttacaaccttggtttcagGTTCAGGAGAGGTTTGAGGTGGATATAAAGGAACTTCCTGAGCAAATTGATACTTCAACATACA

upper sequence: LOC_Os01g36920.2 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv04s0008g05330.t01 (Vitis vinifera), 3'ss of exon 10
gttagta-taattgatcattttaattttgttgcttaactggtgtaacaaagcc-tcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
||| | | | ||||    ||||  ||   ||| ||   || | ||| | |    | | | ||||||  |  |    ||| ||  |||| || || ||||| ||||| || || |||||||| ||||||||||||||||| || ||||| |
gttgggaattattgggt-ttttgtttgcattgttttgttgat-taatatatttgtgaatctaatttgtctggttcaatgattacagGTCCAGGAGAGATTTGAGGTGGATATTAAGGAGCTCCCTGAGCAGATTGATACCTCTACATACA

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|88990367|gb|CI107793.1|CI107793
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88219118|gb|CI220391.1|CI220391
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88978058|gb|CI384540.1|CI384540
EST:     TTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAA-GAACTTCCTGAGCAGATTGAT
genomic: TTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86522049|gb|CI162255.1|CI162255
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|89186757|gb|CI052170.1|CI052170
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86893451|gb|CI313483.1|CI313483
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88844450|gb|CI020297.1|CI020297
EST:     ACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: ACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88989735|gb|CI107422.1|CI107422
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGACTTGA
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGA-TTGA
EST: gi|86522984|gb|CI163190.1|CI163190
EST:     TGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88838688|gb|CI376226.1|CI376226
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|27921417|gb|CB097225.1|CB097225
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86604063|gb|CI114837.1|CI114837
EST:     AATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: AATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|14571484|gb|BI118852.1|BI118852
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88533109|gb|CI460645.1|CI460645
EST:     CTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: CTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88908363|gb|CI090956.1|CI090956
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86889543|gb|CI318734.1|CI318734
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGACCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88253819|gb|CI352445.1|CI352445
EST:     TGCAAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TGC-AATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86261433|gb|CI017175.1|CI017175
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88834130|gb|CI000494.1|CI000494
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86484137|gb|CI126770.1|CI126770
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86890103|gb|CI320092.1|CI320092
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86837578|gb|CI345767.1|CI345767
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88829412|gb|CI074282.1|CI074282
EST:     CAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: CAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86864394|gb|CI334127.1|CI334127
EST:     CTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: CTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|29660259|gb|CB656534.1|CB656534
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86487240|gb|CI129873.1|CI129873
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86600588|gb|CI356345.1|CI356345
EST:     ACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: ACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88489420|gb|CI426692.1|CI426692
EST:     CTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: CTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86597970|gb|CI278360.1|CI278360
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|29676593|gb|CB672868.1|CB672868
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86540264|gb|CI180470.1|CI180470
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|88966687|gb|CI365910.1|CI365910
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|33802738|gb|CF327240.1|CF327240
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86434928|gb|CI106161.1|CI106161
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAAATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86833371|gb|CI334965.1|CI334965
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86842476|gb|CI335343.1|CI335343
EST:     CTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGACCAGATTGAT
genomic: CTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86429821|gb|CI082244.1|CI082244
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|89187102|gb|CI047169.1|CI047169
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
EST: gi|86433493|gb|CI093836.1|CI093836
EST:     TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAA                         GTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT
genomic: TTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGAT

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: 68 (upstream exon), 64 (downstream exon)
Score: 116

GTTGGAAGGGCTGGACGTTTTGGAACCAAAGGACTTGCAATAACATTTGTTTCCTCTGCCTCAGACTCTGATGTTCTTAATCAAgttagtataa ... atgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA
                    gcctcac  putative branch site (score: 116)
                                             atgttttaa  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 
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gttagtataattgatcattttaattttgttgcttaactggtgtaacaaagcctcactgtaatttcacatgcatgatgttttaagGTGCAAGAAAGATTCGAGGTTGACATAAAGGAGCTTCCTGAGCAGATTGATACTTCGACATATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT