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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtggatctgaacatgaatgactctgccttggtgcatctggccaatgctcactgtttaattacgaacttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC

Basic information

species Zea mays
transcript GRMZM2G134917_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134917_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G10150.1 (Glycine max), 3'ss of exon 5
-------------------------gtgggtggatctgaacatgaat-gactctgccttggtgcatctggccaatgctcactgtttaattacgaacttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
                           |  | | | ||    | ||| |    |  | |  ||      |  ||| |  ||| |||  |    |      |||||||| | |||||| || || || || || ||||||||||| |||||||| ||||||||||| || || ||||| |||||| | |||||||| || || ||
gtatgtaaatgattcacgcctgccccagttttgctgtgtgattaaattggtaatttcattatgtgctaagaaaattccaactttttgctggtta-tacatgcagATTCATACAAGGCTATAAATGATGAGGGAATGCCCATGTATCAGAGGCCATTCATGAAGGGGAAACTTTACATTCACTTCACTGTGGAGTTTCCAGATTC

upper sequence: GRMZM2G134917_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G17930.3 (Glycine max), 3'ss of exon 5
---------gtgggtggatctgaacatgaatgactctgccttggtgcatctggccaatgctcactgttt------aattacgaacttgc-----------gcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
         ||   ||  ||  | |       | | |||  || |  |  |||  | |      |||        ||||   |  ||||           |||||||| | |||||| || || || || || ||||||||||| |||||| | ||||||||||| ||||| ||||| |||||| | ||||||||||| || ||
gcctggtatgtaaatgattcacacctgccccaattttgctgtgattaaattggttattttattatgtgccaagaaaattctaactttgctggttatacatgcagATTCATACAAGGCTATAAATGATGAGGGAATGCCCATGTATCAGAGGTCATTCATGAAGGGGAAGCTTTACATTCACTTCACTGTGGAGTTCCCAGATTC

upper sequence: GRMZM2G134917_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G17930.1 (Glycine max), 3'ss of exon 5
----gtgggtggatctgaacatgaatgactctgccttggtgcatctggccaatgctcactgttt------aattacgaacttgc-----------gcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
    ||   ||  ||  | |       | | |||  || |  |  |||  | |      |||        ||||   |  ||||           |||||||| | |||||| || || || || || ||||||||||| |||||| | ||||||||||| ||||| ||||| |||||| | ||||||||||| || ||
gtatgtaaatgattcacacctgccccaattttgctgtgattaaattggttattttattatgtgccaagaaaattctaactttgctggttatacatgcagATTCATACAAGGCTATAAATGATGAGGGAATGCCCATGTATCAGAGGTCATTCATGAAGGGGAAGCTTTACATTCACTTCACTGTGGAGTTCCCAGATTC

upper sequence: GRMZM2G134917_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv13s0073g00560.t01 (Vitis vinifera), 3'ss of exon 6
--------gtgggtggatctgaacat-------gaat---gactctg--ccttgg---tgcatctggccaatgctcactgtttaattacgaacttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
        ||  | | ||   || ||        |||     |||||  | |||    |   | |      |  | ||   ||   || |        ||||    |||||||| || || || ||||| |||||||| ||||||| ||| ||||||||||| ||  ||||||| |||||  | ||||| ||||| |||||
gcgatactgtaagagaataaaaatattctcctgaaatttcagctctgggctttgactttctgttttcttggttgtgacc-cttgtctatgtttccatacagACCAATTCAAGGCTATAAATGATGAAGGAATGCCCATTTACCAGAAGCCATTCATGAAGGGGAAATTGTACATTCACTTTGCAGTGGATTTCCCTGACTC

upper sequence: GRMZM2G134917_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0080g01230.t01 (Vitis vinifera), 3'ss of exon 5
----------------gtgggtggatctgaacatga-atgactctgccttggtgcatctggcca-----atgctcactgtttaattacgaacttgc----gcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
                 |   ||  |||   ||| | ||| ||||  ||  ||| || ||| ||     ||| | ||||     |   | | |||     ||||||   |||||||| ||||| ||||| || ||||| || ||||||||||| ||||||| ||| ||||| |||||||| |||   ||||||||||||||| |
gttagtaatgtcatatctctatgtttcttttcattacatggctctctctgtgtg-atttggtcatttaaatgttgactggggggtgggggagttgttaatgcagATCAGTTCAAGGCAATCAATGACGAGGGAATGCCAATATACCAGAGGCCATTCATGAGGGGGAAGCTATACATCCAGTTCAACGTGGAGTTCCCGGACAC

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|22819699|gb|BU499789.1|BU499789
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|4837585|gb|AI670675.1|AI670675
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32920892|gb|CF025704.1|CF025704
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCAATGTA
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTA
EST: gi|32841430|gb|CD981111.1|CD981111
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|67011279|gb|CO440028.1|CO440028
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841622|gb|CD981303.1|CD981303
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|28931117|gb|CB334478.1|CB334478
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|211171261|gb|FL048691.1|FL048691
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|20802348|gb|BQ293398.1|BQ293398
EST:     TAACAGGCAGCTGCTGATCGAATCGAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAGCGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|67024864|gb|CO453613.1|CO453613
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|6742398|gb|AW313213.1|AW313213
EST:     TACCAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|6760623|gb|AW324722.1|AW324722
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCANCGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|21331237|gb|BQ486618.1|BQ486618
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841638|gb|CD981319.1|CD981319
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|32841171|gb|CD980852.1|CD980852
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|32849751|gb|CD989432.1|CD989432
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGT
EST: gi|32921796|gb|CF026608.1|CF026608
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAG
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAG
EST: gi|32840718|gb|CD980399.1|CD980399
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|32841619|gb|CD981300.1|CD981300
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|149075197|gb|EE163696.2|EE163696
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841080|gb|CD980761.1|CD980761
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|21432300|gb|BQ547790.1|BQ547790
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|16926036|gb|BM079104.1|BM079104
EST:     AGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: AGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841292|gb|CD980973.1|CD980973
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|6449700|gb|AW181240.1|AW181240
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32921536|gb|CF026348.1|CF026348
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCAATGTA
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTA
EST: gi|5608433|gb|AI902010.1|AI902010
EST:     GATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCANCGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: GATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841278|gb|CD980959.1|CD980959
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|28985229|gb|BQ538392.2|BQ538392
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32841040|gb|CD980721.1|CD980721
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACC
EST: gi|15079649|gb|BI388784.1|BI388784
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|32920834|gb|CF025646.1|CF025646
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCAATGTA
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTA
EST: gi|60399416|gb|DN232228.1|DN232228
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
EST: gi|12968015|gb|BG264962.1|BG264962
EST:     TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTG                         ATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT
genomic: TAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGT

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: 463

ACCTTGACTGAATCTCTGTGTGGCTTCCAGTTTGTTGTGACTCACTTGGATAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 325

ACCTTGACTGAATCTCTGTGTGGCTTCCAGTTTGTTGTGACTCACTTGGATAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 306

ACCTTGACTGAATCTCTGTGTGGCTTCCAGTTTGTTGTGACTCACTTGGATAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 720

ACCTTGACTGAATCTCTGTGTGGCTTCCAGTTTGTTGTGACTCACTTGGATAACAGGCAGCTGCTGATCAAATCAAATCCGGGCGAAGTTGTGAAGCCTGgtgggtggat ... acttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctgccttggtgcatctggccaatgctcactgtttaattacgaacttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC
                                tgtttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtggatctgaacatgaatgactctgccttggtgcatctggccaatgctcactgtttaattacgaacttgcgcagATTCTTTCAAGGCGATCAACGACGAAGGCATGCCCATGTACCAGAGGCCGTTCATGAAGGGCAAGCTGTACATCCACTTCTCGGTGGAGTTCCCGGACTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG