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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag

Basic information

species Zea mays
transcript GRMZM2G179976_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g03640.1 (Oryza sativa), 5'ss of exon 3
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagc----------ctggaagcaatatctgtgtta-ctgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag-----
||||| |||||||||||||||||||| ||||||||||||||||| || || ||||||||||||||||| |||||||| ||||||||||||||||||||||||| |           ||  |  ||   || | ||  ||| | | | ||   |  | |   ||  |||||| |  || | | |        
GTTGGAGCTCCTGCTCGTGTTGGTCTTGTTGCTCCTGTTGATGTGGTGGTTCCCCCTGGCAACACTGGTCTGGATCCATCCCAGACCTCTTTCTTCCAGgtgatcatttgttgatttgttaataaatactatcttgtctgcttagt-caagtagtcaactacatgttctcactgttcctatcttgttacag

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g04070.1 (Oryza sativa), 5'ss of exon 3
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcc----tggaagcaatatctgtg--ttactgttaaatgcacacacaccatgtcagt-ttctcattcgtcatttttcag
||||| |||||||||||||||||||||||||||||||||||||| || || |||||||| |||||||| ||||||||||||||||| |||||||| ||||||| |     | || |   || |  |   |||   |   |  || | |||   | ||| | |||||  | || |        
GTTGGAGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTGGTGGTTCCCCCTGGAAACACTGGTCTGGATCCCTCCCAGACTTCTTTCTTTCAGgtgatcatttgtagatgtgttaaccatagtttatcttcgcagtcaaatacaagttctcactgttctctcttgttacag-----

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g03880.1 (Oryza sativa), 5'ss of exon 3
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagc-ctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcatt----cgtcatttttcag
||||| |||||||||||||||||||||||||||||||||||||| || || |||||||| |||||||| || |||||||||||||| |||||||||||||||| |  | |  |   | |     | | |||| | | | || |  | |   ||  |||||| |      || | || |||
GTTGGAGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTGGTTGTTCCCCCTGGAAACACTGGTCTCGATCCCTCCCAGACTTCTTTCTTCCAGgtgatcatttgtcgatgtgttaacat-attgttta-tcctcagagtcaaatacaagttctcactgttctatcttgttacag

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S39_424V6.1 (Physcomitrella patens), 5'ss of exon 2
-GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag-------------------------------
 || || |||||||| ||||| ||||| ||||| ||  |||||||  | || || |||||||||||||| ||||||||||| ||||| |||||||||||||||||  |  ||  |    ||   |  | | ||          |||  || ||  |  |  || |||   |||| |                               
GGTCGGAGCTCCTGCGCGTGTGGGTCTTGTTGCCCCCATTGATGTGATTGTACCTCCTGGCAACACTGGTCTGGATCCCTCTCAGACTTCTTTCTTCCAGgtgagatttaaattacgcacttgatggcagatat-catgttttcacagtgacatctgatattttgtccactttccgtttctgacacctgatgcgtgttgattatcag

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S38_196V6.1 (Physcomitrella patens), 5'ss of exon 2
-GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgag--cctggaagcaatatctgtgttactgttaaatgcacacaca-ccatgtcagtttctcatt---------cgtcatttttcag--------------------------------------------------------------------------
 || || || ||||||||||| ||| ||||||| ||  | ||||| || || ||||| || |||||||| ||||||||||| ||||| |||||||||||||| ||  | | |    |   | |||  ||    | |     ||  ||  ||  | || || ||             ||| |||||| |                                                                          
GGTCGGAGCACCTGCTCGTGTGGGTTTGGTTGCCCCCATCGATGTGGTTGTTCCCCCCGGTAACACTGGTCTGGATCCCTCGCAGACATCTTTCTTCCAGgtaaggtcttcggtatatggtatgttctatgaatgagattccagtcagtcaatttagcttatcgcagtgggcaagtgtcctttttctgatgtcgttctttatggcagttatgaaacgctgttaactgaaggtttctgacgaatagaatgctgaactctccag

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ13245 (Selaginella moellendorffii), 5'ss of exon 3
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag
||||| || ||||||||||| || || ||||| ||  | || ||   | | || ||||| | ||||||||| |||||||| ||||| ||||||||||||||  | |         | | | | ||    ||   ||    || ||  ||  |  |||                  
GTTGGAGCGCCTGCTCGTGTCGGACTTGTTGCCCCGATCGACGTAACCATTCCTCCTGGAAGCACTGGGCTTGATCCCTCGCAGACATCTTTCTTCCAGgttcgaccctctttttttttttttttttgtttctgtg-gttcatact-tgcaaacttccag---------------

upper sequence: GRMZM2G179976_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ24514 (Selaginella moellendorffii), 5'ss of exon 3
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag
||||| || ||||||||||| || || ||||| ||  | || ||   | | || ||||| | ||||||||| |||||||| ||||| ||||||||||||||  | |   |       ||||| |   || |  || |   || ||  |  |||                      
GTTGGAGCGCCTGCTCGTGTCGGACTTGTTGCCCCGATCGACGTGACCATTCCTCCTGGAAGCACTGGGCTTGATCCCTCGCAGACATCTTTCTTCCAGgttcgaccaaagaggtgctctgtttctgtggttcatacttgcaaac--ttccag----------------------

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|213191199|gb|FM183586.1|FM183586
EST:     TGCCCCCTGGCAACACTGGGCTGAATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|22935632|gb|BU571907.1|BU571907
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31997723|gb|CD661740.1|CD661740
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACT
EST: gi|32908336|gb|CF013149.1|CF013149
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCAC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCAC
EST: gi|31663966|gb|CD573146.1|CD573146
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GGGCTTAACATCCCCACCAAGATTAACAAGGGTACT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACT
EST: gi|150037307|gb|DY843515.1|DY843515
EST:     TGCCCCCTGGCAACACTGGGCTGGATCTCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31558740|gb|CD527952.1|CD527952
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|30705241|gb|CD058712.1|CD058712
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31911028|gb|CD651720.1|CD651720
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31355609|gb|CD439966.1|CD439966
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31664001|gb|CD573181.1|CD573181
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31911046|gb|CD651729.1|CD651729
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|211167812|gb|FL157561.1|FL157561
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|89759586|gb|DY688366.1|DY688366
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|30088346|gb|CB886551.1|CB886551
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32943062|gb|CF047881.1|CF047881
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATAATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32942938|gb|CF047757.1|CF047757
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGT
EST: gi|32906946|gb|CF011759.1|CF011759
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTCCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGT
EST: gi|32943216|gb|CF048035.1|CF048035
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGT
EST: gi|31405629|gb|CD484361.1|CD484361
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|6021340|gb|AW066268.1|AW066268
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31997903|gb|CD661825.1|CD661825
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAA
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAA
EST: gi|148948236|gb|EC893752.2|EC893752
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|20802718|gb|BQ293768.1|BQ293768
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32908351|gb|CF013164.1|CF013164
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|33093408|gb|CF053402.1|CF053402
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTA
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTA
EST: gi|26456447|gb|CA828030.1|CA828030
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|30087122|gb|CB885330.1|CB885330
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCA
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCA
EST: gi|91867484|gb|EB399707.1|EB399707
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|94479985|gb|EB708943.1|EB708943
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31998556|gb|CD662131.1|CD662131
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|31406408|gb|CD485140.1|CD485140
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCAC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCAC
EST: gi|22521201|gb|BU080012.1|BU080012
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|6021353|gb|AW066281.1|AW066281
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32909138|gb|CF013950.1|CF013950
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGG
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGG
EST: gi|30306943|gb|CD001616.1|CD001616
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTA
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTA
EST: gi|22473450|gb|BU037930.1|BU037930
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32907155|gb|CF011968.1|CF011968
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGT
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGT
EST: gi|32858271|gb|CD997952.1|CD997952
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|29543711|gb|CB604091.1|CB604091
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|28361713|gb|CB240069.1|CB240069
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGCACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|28361521|gb|CB239877.1|CB239877
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|149008455|gb|EE040619.2|EE040619
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|211347775|gb|FL131524.1|FL131524
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32909368|gb|CF014180.1|CF014180
EST:     GCCCCCTGGCAACACTGGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCGAGATT
genomic: GCCCCCTGGCAACACTGGG-CTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATT
EST: gi|31663995|gb|CD573175.1|CD573175
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|32944227|gb|CF049046.1|CF049046
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|6564136|gb|AW231758.1|AW231758
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGAGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|76289747|gb|DV029315.1|DV029315
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
EST: gi|67019587|gb|CO448336.1|CO448336
EST:     TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAG                         GTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC
genomic: TGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACC

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 415

GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACCCCTGTGGAGCTGATCAAGAAGGGTGAGAAGGTGGGCTCGTCCGAGTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 339

GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACCCCTGTGGAGCTGATCAAGAAGGGTGAGAAGGTGGGCTCGTCCGAGTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 283

GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACCCCTGTGGAGCTGATCAAGAAGGGTGAGAAGGTGGGCTCGTCCGAGTCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 298

GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctgg ... catttttcagGTGCTTAACATCCCCACCAAGATTAACAAGGGTACTGTGGAAATTATCACCCCTGTGGAGCTGATCAAGAAGGGTGAGAAGGTGGGCTCGTCCGAGTCTG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGGGGCTCCTGCTCGTGTTGGTCTGGTTGCTCCTGTTGATGTTGTCGTGCCCCCTGGCAACACTGGGCTGGATCCCTCCCAGACCTCTTTCTTCCAGgtgagcctggaagcaatatctgtgttactgttaaatgcacacacaccatgtcagtttctcattcgtcatttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA