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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatatattttggcgcatttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA

Basic information

species Oryza sativa
transcript LOC_Os05g49200.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G057724_T01 (Zea mays), 3'ss of exon 8
-----atata-tattttggcgcatttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
      |||  |||| | |  | ||||| |  ||| |    | |    ||    ||| |  | |  | ||| |||  | ||||||||| | |   | ||||  ||||||||| |||||  | ||||||||  |||| || ||||||||||| |||||||| ||||| ||| |||||||||||||||||||||||||||| ||||| 
tatgattatggtattgtagaac-tttgttac-atattggtttgtacttcgggatatgtaatttacttcgcacatc--tggtccctaataacaa--acaaattgcagGTATAACATGGTGAAACAAGGTCTCATCAGCGACCCTGTTTTCTCTTTCTGGTTTAACCGACATGCTGATGAAGGAGAAGGTGGTGAAATTGTATTTGGT

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G370357_T01 (Zea mays), 3'ss of exon 3
atatatattttggcgcatttgtcatgataa-ttagatttttcacgta--tcatg--cacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGA-GCAAGGTCTTG--TCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
 |   | || |   | |       | |||| |||    | ||  | |  |||||   ||      |      | ||  | |     |  | ||    ||  |       |||||  |  |  | |     ||  |||| || ||||||||||| |||||||| ||||| ||| |||||||||||||||||||||||||||        
gtcgtttttctaaggtaagcaattttataagttattactatctggcagttcatgattactggtctttcttttttcactgccttgggttttctgatctaagGAGGAAGGCAAGATCATGAATACTACTCAATGCTTCAGCGACCCTGTTTTCTCTTTCTGGTTTAACCGACATGCTGATGAAGGAGAAGGTGGTGAAATTG--------

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G065757_T02 (Zea mays), 3'ss of exon 5
---atatatattttggcgca-tttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
   || |   | |||  | | ||||| |  ||| |    | |     |    ||| |  | |  | ||| |||  | ||||||||  | |   | ||||  ||||||||| |||||  | ||||||||  |||| || ||||||||||| |||||||| ||||| ||| |||||||||||||||||||||||||||||||||| 
gtgattttggtattgtagaactttgttac-atattggtttgtactttgggatatgtaatttacttcgcacatc--tggtccctaagaacaaaca-aaattgcagGTATAACATGGTGAAACAAGGTCTCATCAGCGACCCTGTTTTCTCTTTCTGGTTTAACCGACATGCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGT

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G001713_T01 (Zea mays), 3'ss of exon 1
-----atat-atattttggcgcatttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
      ||| ||||| | |  | ||||| |  ||| |    | |    ||    ||| |  | |  | ||| |||  | ||||||||| | |   | ||||  ||||||||| |||||  | ||||||||  |||| || ||||||||||| |||||||| ||||| ||| |||||||||||||||||||||||||||| ||||| 
tatgattatgatattgtagaac-tttgttac-atattggtttgtacttcgggatatgtaatttacttcgcacatc--tggtccctaataacaa--acaaattgcagGTATAACATGGTGAAACAAGGTCTCATCAGCGACCCTGTTTTCTCTTTCTGGTTTAACCGACATGCTGATGAAGGAGAAGGTGGTGAAATTGTATTTGGT

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G035636_T01 (Zea mays), 3'ss of exon 5
-----atata-tattttggcgcatttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
      |||  |||| | |  | ||||| |  ||| |    | |    ||    ||| |  | |  | ||| |||  | ||||||||| | |   | ||||   |||||||| |||||  | ||||||||  |||| || ||||||||||| |||||||| ||||| ||| |||||||||||||||||||||||||||| ||||| 
tatgattatggtattgtagaac-tttgttac-atattggtttgtacttcgggatatgtaatttacttcgcacatc--tggtccctaataacaa--acaaattgtagGTATAACATGGTGAAACAAGGTCTCATCAGCGACCCTGTTTTCTCTTTCTGGTTTAACCGACATGCTGATGAAGGAGAAGGTGGTGAAATTGTATTTGGT

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|33795396|gb|CF323568.1|CF323568
EST:     GGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: GGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29639173|gb|CB644182.1|CB644182
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29673512|gb|CB669787.1|CB669787
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29660449|gb|CB656724.1|CB656724
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|125863426|gb|EL586708.1|EL586708
EST:     TATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: TATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29643320|gb|CB648327.1|CB648327
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29675128|gb|CB671403.1|CB671403
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29660445|gb|CB656720.1|CB656720
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|58658759|gb|CK047439.1|CK047439
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|86908029|gb|CI298797.1|CI298797
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29657722|gb|CB653997.1|CB653997
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29687486|gb|CB683761.1|CB683761
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|58670333|gb|CK059019.1|CK059019
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAG
EST: gi|29615519|gb|CB620531.1|CB620531
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGT
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGT
EST: gi|29669082|gb|CB665357.1|CB665357
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|33682905|gb|CF311144.1|CF311144
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29660989|gb|CB657264.1|CB657264
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29627821|gb|CB632832.1|CB632832
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29677506|gb|CB673781.1|CB673781
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|8251272|gb|AU091468.1|AU091468
EST:     CTTGGGCTTGGANTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAAAACAAGGGTCTTGTCAGTGA
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGG-TCTTGTCAGTGA
EST: gi|218478948|gb|FG952780.1|FG952780
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|58681561|gb|CK070248.1|CK070248
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29636406|gb|CB641415.1|CB641415
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29644200|gb|CB649207.1|CB649207
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|86847366|gb|CI286963.1|CI286963
EST:     TGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: TGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29664332|gb|CB660607.1|CB660607
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|33381232|gb|CF196575.1|CF196575
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29681831|gb|CB678106.1|CB678106
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|218481767|gb|FG945139.1|FG945139
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|218486960|gb|FG945468.1|FG945468
EST:     TGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: TGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|29639939|gb|CB644948.1|CB644948
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
EST: gi|428757|gb|D24912.1|D24912
EST:     CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTG                         GTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG
genomic: CTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTG

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), 73 (downstream exon)
Score: 220

CTACCAAGGAGCCAGGTCTTACTTTCATGGTTGCAAAATTTGATGGCATTCTTGGGCTTGGATTTCAGGAAATATCCGTTGGAGATGCAGTACCTGTGTGgtaagacaac ... taaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA
                              ccctaat  putative branch site (score: 220)
                                 taatgatatgtataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atatatattttggcgcatttgtcatgataattagatttttcacgtatcatgcacataatatagcagatccatagtccctaatgatatgtataaatcacagGTATAAGATGGTAGAGCAAGGTCTTGTCAGTGAGCCTGTTTTCTCCTTCTGGTTCAACCGTCATTCTGATGAAGGAGAAGGTGGTGAAATTGTGTTTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - gcatttg
- - - - - - - - - - -tcatgat
- - - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgta