Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaaaagaatagatccagtggaactaatatgccaccccccctccccccctaaaaggtgatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG

Basic information

species Zea mays
transcript GRMZM2G122937_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G122937_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g45070.1 (Oryza sativa), 3'ss of exon 4
ggaaaagaatagatccagtggaactaatatgccaccccccctccccccctaaaaggt--gatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG
  | | | | || |  |    |||||     | || |        |   ||  | ||  |  ||||| | | ||| ||| |||    |||   |   ||||||| ||||||||||||||||||||||||||||||||||||||||||||||| || || ||  | ||||||||||| || |||||| |||| ||||| ||||
-tatagggaaagctgtaccttaactataggactacacatgtcatacttgtatcatgtatggcatcctttgaactaaagcctatgca-tttgcaccctttcagGAGCAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAAGTCGCGATCGTCCACAAGGAAGCTGAGGAGAAGAGAGCAATGGTCGAGG

upper sequence: GRMZM2G122937_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G61260.1 (Arabidopsis thaliana), 3'ss of exon 4
ggaaaagaatagatccagtggaactaatatgccaccccccctccccccctaaaaggtgatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG
     | |||| |   ||    |   |  ||  ||              | | | ||||  |  |         |  || |  | ||| |     | ||||| ||||| || |||||||| || || |||||||||| ||||||||| |||||||||  ||| ||||||||||| |||||||   |||| ||| | || |
---gtataataaacttagcaatagagaggtgaaacggttttaatgtgattgagaagtgaagtgtt---------aatttgtgagttttttctcaatgcagGAGCAACTAGAGAAGAAGAAAGCAGAGTATGCAGAGAGGATGAAGAATAAGGTTGCAGCGATTCACAAGGAAGCAGAAGAGAGAAGAGCAATGATTGAAG

upper sequence: GRMZM2G122937_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv15s0046g03180.t01 (Vitis vinifera), 3'ss of exon 4
ggaaaagaatagatccagtggaactaatatgccaccccccctccccccctaaaaggtgatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG
|  ||  || |    |  |  || ||  |   ||   |   |              |   ||  | |    |  |   ||     || |  |||| ||||||| || |||| ||||||||||| |||||||||||||| ||||| ||||| || ||| |||| |||||| |||| ||||| |||   || ||| | || |
gagaagcaaaatgaactttcaaattaggagaacaatacgaattttgtttggttttatatgatgttttacattgaactctaacaacttcaagcatgatcagGAAGAATTGGAGAAGAAGAAGGCAGAATATGCAGAGAAAATGAAAAACAAAGTAGCATTGATTCACAAGCAAGCAGAAGAAAAGAAGGCAATGATTGAAG

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|18168286|gb|BM338126.1|BM338126
EST:     GGGAAAACACAAAGAAAGCGAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|211265456|gb|FL003939.1|FL003939
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAARAAGGCTGAATATGAAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|16921666|gb|BM075240.1|BM075240
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|211416317|gb|FL076963.1|FL076963
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAG-ACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|13178708|gb|BG349966.1|BG349966
EST:     GGGAAAACACAAAGAAAGCAGACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18172733|gb|BM348121.1|BM348121
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18174754|gb|BM350142.1|BM350142
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|15214484|gb|BI431017.1|BI431017
EST:     GAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18179208|gb|BM380418.1|BM380418
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18180045|gb|BM381255.1|BM381255
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18175084|gb|BM350472.1|BM350472
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|32824753|gb|CD964475.1|CD964475
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|83278839|gb|DV942847.1|DV942847
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18172642|gb|BM348030.1|BM348030
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18165727|gb|BM335566.1|BM335566
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|13381780|gb|BG458335.1|BG458335
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|17930789|gb|BM267749.1|BM267749
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|16377183|gb|BI991817.1|BI991817
EST:     AAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: AAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|16920671|gb|BM074771.1|BM074771
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|5761796|gb|AI966949.1|AI966949
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18168900|gb|BM338740.1|BM338740
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|28986517|gb|CB351176.1|CB351176
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|17931968|gb|BM268928.1|BM268928
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|32794689|gb|CD946925.1|CD946925
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|6601635|gb|AW256181.1|AW256181
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18170056|gb|BM339896.1|BM339896
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|32824986|gb|CD964708.1|CD964708
EST:     AAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAGGATGAAGAACAAG
genomic: AAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18162835|gb|BM332674.1|BM332674
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAGCAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|14243967|gb|BG841745.2|BG841745
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|211418859|gb|FL076971.1|FL076971
EST:     AAAGAAAGCAAACATAGAAGCTGAACTGARGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: AAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|21891777|gb|BQ744990.1|BQ744990
EST:     GGGAAAACCCAAAGAAAGCAAGCATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|148966674|gb|EE017731.2|EE017731
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|45847967|gb|CN071910.1|CN071910
EST:     GGGAAAACCCAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|15214758|gb|BI431067.1|BI431067
EST:     GGGAAAACCCAAAGAAAGCCAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|28986148|gb|CB350993.1|CB350993
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|86472908|gb|DY239278.1|DY239278
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|17930420|gb|BM267380.1|BM267380
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18170396|gb|BM340236.1|BM340236
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|149069632|gb|EE158017.2|EE158017
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|108953322|gb|EC364694.1|EC364694
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAATTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCATAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|12968009|gb|BG264956.1|BG264956
EST:     ACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: ACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18167107|gb|BM336946.1|BM336946
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|211416318|gb|FL076964.1|FL076964
EST:     AAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: AAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18176812|gb|BM351745.1|BM351745
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|16920795|gb|BM074834.1|BM074834
EST:     GGGAAAACACAAAGAAAGCCAACATAGAAGCTGAACTAAAGAAGATTGAG                         GAACAACTGTAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGACCAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|148944466|gb|EC889583.2|EC889583
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|13381569|gb|BG458349.1|BG458349
EST:     ACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: ACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18174579|gb|BM349967.1|BM349967
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18165886|gb|BM335725.1|BM335725
EST:     GGGAAAACGCAAAGAAAGCAAACATAGAAGCTGAGCTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|10191685|gb|BE761761.1|BE761761
EST:     GGGAAAACCCAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|60345190|gb|DN212163.1|DN212163
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|15053632|gb|BI359177.1|BI359177
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18165653|gb|BM335492.1|BM335492
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|18163345|gb|BM333184.1|BM333184
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|213171583|gb|FM184654.1|FM184654
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|15100443|gb|BI396234.1|BI396234
EST:     GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: GGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
EST: gi|211416316|gb|FL076962.1|FL076962
EST:     ATAGAAGCTGAACTGAAGAAGATTGAG                         GAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG
genomic: ATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAG

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: 244

GGCTGCTAAGAAAGTATCCGCTATTCTTTCATGGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1739

GGCTGCTAAGAAAGTATCCGCTATTCTTTCATGGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2010

GGCTGCTAAGAAAGTATCCGCTATTCTTTCATGGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1170

GGCTGCTAAGAAAGTATCCGCTATTCTTTCATGGGAAAACACAAAGAAAGCAAACATAGAAGCTGAACTGAAGAAGATTGAGgtatgtcatt ... tcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccctaaaaggtgatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG
 ccctaaa  putative branch site (score: 1170)
                                        tttattc  putative PPT
                                ttatatggtttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaaaagaatagatccagtggaactaatatgccaccccccctccccccctaaaaggtgatatcctcttagctacagcttatatggtttattcatgttcagGAACAACTGGAAAAGAAGAAGGCTGAATATGCAGAGAAGATGAAGAACAAGGTTGCAATGATACACAAGGAAGCCGAAGAGAAGCGAGCGATGGTGGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- aaaagaa
- - - - - - - - - - gaactaa
- - - - - - - - - - - - - - - - caccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctacag