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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag

Basic information

species Zea mays
transcript GRMZM2G091119_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttag-tcttatctt----ttgtgctttct-tattttct-------atttag---gagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
 ||||||||||| || |||||||||||||| ||||||||||||||||| || |||||||||||||||||||| |||  ||||||||||||||||||||||||||    | |  || |  |||    ||||||||||| || || ||       |||| |   ||||| ||  |  | |  | |    ||| |   | || ||| || |   |||
ATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTCTTGGTTCTTCTAGTGATGATGTTCGTGAGCAGgtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgagtgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaag

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA07G37180.1 (Glycine max), 5'ss of exon 5
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtat-ttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
 ||||| ||||| || || || ||||| || |||||||| ||||| |||||||||||||| ||||| ||  | ||    |||||||||||||| |||||||||| |||| |     |     |   ||| |   | ||| || ||   | || |       ||| | |    | |||    ||  |             
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTACTCAGTTCACCCAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcagctgcagctgtacaactttttaatttt-actgaac------tgaaaattaattctctgaaattccag------------

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA09G04430.1 (Glycine max), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtcttatcttttgtgct-ttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
 ||||| ||||| || ||||| ||||| || |||||||||||||| ||||| |||||||| ||||| ||| | ||    |||||||||||||| |||||||||  | || |  | |   | | ||  |  |   |||   | ||| | | | |  |  | |    |      |        | | |||    |      
ATCTGGAACTTCTGAGAATACCAAGGTGGTGATTGATCATGGGGCAGTTCCGATATTTGTCAAGCTACTTAGTTCGCCCAGTGATGATGTTCGGGAGCAGgta--tgttgatgcatgaatgtggtagtgctgacattacttgttttgaaattttggccgagct-taccagaatactaaaactctgaaattccag-----

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G29000.1 (Glycine max), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtat----ttatttagtcttatcttt-tgtgctttcttattttctatttag--gagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
|||||| || || ||||| ||||||||||| |||||||| |||||||| || || || |||||||| ||||  |||  |||||||||||| || || |||||||    || |||| || ||| ||    | | ||| |  | |||||  |    |  |  |      |||  |         | ||||       | |       
TTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTACTTGCTTCTCCTAGTGATGATGTCCGCGAACAGgtatattattctttattcatatattaacataccttcat-ctgtctatgaaattaaaagggtagctcttgattgcaaaacacgtttgttcatgtttattttt----

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtat-ttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
 ||||| ||||| || || || ||||| || |||||||||||||| |||||||||||||| ||||| ||| | ||   ||||||||||||||| |||||||||| |||| |     |   | |   ||| |   | ||| || ||   | || |       ||| | |    | |||    ||  |             
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcatctgtagctgtacaactttttaatttt-actgaac------tgaaaattaattctctgaaattccag------------

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtat-ttatttagtcttatcttttgtgctttcttattttctattta-ggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag-
|||||| || || ||||| || |||||||| |||||||| |||||||| || || || |||||||| ||||  |||  |||||||||||| ||||| ||||||| ||||| | | ||    | |  || | | | |  ||| | || | | || | ||  | ||  |      ||| | | ||||   | |||  ||    
TTCTGGGACGTCTGAAAACACCAAGGTTGTCATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTACTTGCTTCTCCTAGTGATGATGTCCGTGAACAGgtatgttattcatttttcatatattagcatacct-tcatctgtctatgaaatgcaagaactttgggatccagtttttttttttttgtgataatgaaattaa

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G16143.1 (Arabidopsis thaliana), 5'ss of exon 3
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgta-----tttatttagtcttatcttttgtgctttcttat--tttctatttaggagtgtatgatgtgtgacagtgccct-----ttctctgttt-taaaacaatacaaaag----
|||||| |||||||| ||||||||||| || ||||| ||||| |||||||| || |||||  | ||  | |  |||   ||||||||||| ||||||||||||     | | ||||   || | | |  ||  |   |||  | || |||| |     | |   |    |   ||  ||     || | ||||| | || |  | ||   |    
TTCTGGGACTTCAGAGAATACAAAGGTGGTCATTGAACATGGTGCTGTTCCGATTTTTGTTCAACTATTGGCTTCTCAGAGTGATGATGTCCGTGAGCAGgtaagatatgtgtttatggttttttctcatgactcaatatactgtcaattttgtttgttttcgggaacaagcatgttctaaagcttgtttgtttcttaatcttttcatgtgtaag

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv07s0005g01100.t01 (Vitis vinifera), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag-------------------------------------------
|||||| || |||||||| || |||||||| || |||||||| || ||||| || ||||||||||||||||| ||    | ||||||||| ||||| ||||||| |||| |  |  ||     || | | |     |  | | | |  |||| ||   ||   |   | |  || ||   |     |      | |||                                           
TTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTCTTGGTTCCCAAAATGATGATGTCCGTGAACAGgtatatattaaaacagatgacaggttcatccccgcatgttttcttgatgtgtttgcattgcagctcagtcagttgtcaaatagttcattgcctataagtgatgaggaatttgagctttttagttttgccttttttctgtag

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt-agtcttatcttttgtgctttcttatttt-----ctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaat-acaaaag-----
|||||| || ||||||||||| ||||| || ||||||||||| || || || |||||||||||||| ||||| |||   |||||||||||||| ||||||||  |||||| |   || | |   |  | || | |  ||     || | ||  | |   ||   |   | ||   |     | | | | ||| |  | || |||      
TTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTACTTGGTTCTCCAAGTGATGATGTTCGGGAGCAGgtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtag

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 5'ss of exon 4
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatga-tgtgtgacagtgccctttctctgttttaaaacaatacaaaag--
|||||| || || || || || ||||| || ||||||||||||||||| ||  | |||||||| |||||||| |||   ||||||||||||||||| ||||||  ||||| |    |  ||   | | | || || |  | |||||    || ||  | | | |   |  | ||| | | |  ||      |    ||   
TTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTCTTGGTTCTCCAAGTGATGATGTTCGTGAACAGgtacatattttgaagaacattcc-tacctgctaatatagtttttagtttagtttgtctttttaattattgcatttttttttggtatgcttgtttggaatgt

upper sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S43_141V6.1 (Physcomitrella patens), 5'ss of exon 5
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtc-ttatcttttgtgctttcttattttctatttagga-gtgtatgatgtgtgacagtgccc----tttctctgttttaaaacaatacaaaag
 || || || || ||  | ||    ||||| ||||| ||||||||||||||||| |||||  |||||||  | |||  |||||| |||||||||||||||||||  ||| | |  || |    | |   | ||||  | | |  |     |  | | |||  |     |||      ||||| | |  |  | || | ||    
ATCCGGAACATCTGATCACACTCGTGTTGTGATTGAGCATGGGGCTGTTCCTATCTTTGTTCAGCTTCTGAGCTCTCCTAGTGACGATGTTCGTGAGCAGgtatgaattgaatgattttgggatattactgcttaactgccaggtgttctgcatctaatggatagttttgcttcagatttctatctggtgtatcactgca----

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|211097395|gb|FL161930.1|FL161930
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148930623|gb|EE285320.2|EE285320
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149036989|gb|EE155227.2|EE155227
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|26457325|gb|CA828908.1|CA828908
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211097396|gb|FL161931.1|FL161931
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGTTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTTGGGCA-TGTTGCTGGCGATTTCTCCGAAGTGTCGTG
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTT-GGGCAATGTTGCTGGCGATT-CTCCGAAGTGTCGTG
EST: gi|211099874|gb|FL161945.1|FL161945
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092445|gb|FL161903.1|FL161903
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAAATGT-GCTGGCGATTCTCCGAAGTGTCGTGA
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAA-TGTTGCTGGCGATTCTCCGAAGTGTCGTGA
EST: gi|22521415|gb|BU080226.1|BU080226
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211089987|gb|FL161898.1|FL161898
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCA-TGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092447|gb|FL161905.1|FL161905
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|89252976|gb|DY624762.1|DY624762
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149015249|gb|EE045043.2|EE045043
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149067410|gb|EE286973.2|EE286973
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092451|gb|FL161909.1|FL161909
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211097406|gb|FL161941.1|FL161941
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCCGA-GTGTCGTGA
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCC-GAAGTGTCGTGA
EST: gi|211094922|gb|FL161920.1|FL161920
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148982771|gb|EE028594.2|EE028594
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148931614|gb|EC874737.2|EC874737
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC

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: 805

TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 298

TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 347

TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 378

TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG