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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgacagactgttagggataacacaacctatgacaatttataataactacgtttgtcctttcttccatgttcacagcatctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

Basic information

species Zea mays
transcript GRMZM2G159369_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 3'ss of exon 7
tgacaga-ctgttagggata-acacaacctatgacaatttataat-aactacgtttgtcctttcttccatgttcacagcatctttaataat--atacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
    ||| ||   |   | | ||      |   |  || | |  |     | || |||  ||||||||   |  | || || |||||| ||  || || || ||| ||||| |||||||||||||| |||||||| |||||||| |||||||||||||| ||||||||||||||||| || || || ||||||||||| ||||||
---tagatctaacatacacatacctgtttttataggatgtgtggttggtcatgtatgtt-tttcttccccata-agagaatttttaatcatgcatgccacttcagGTATGGAGTTTCTGGTTTCCCCACATTGAAATTCTTCCCAAAGGGAAACAAAGCTGGTGAAGATTATGATGGCGGTCGCGAGTTGGATGACTTCGTCAAG

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G01750.3 (Glycine max), 3'ss of exon 7
tgacagactgttagggataacacaacctatgacaatttataataactacgt-ttgtcctttcttccatgttcacagcat-ctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
| || |    | ||  |  | | || | |    |    ||||  |     | ||      |  |  ||  |   ||  | ||  ||||||||   | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagtttgctggaataatat--ttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G01820.1 (Glycine max), 3'ss of exon 8
tgacagactgttagggataacacaacctatgacaatttataataactacgtttgtcctttcttccatgttcacagcatctttaataata-tacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
  |   |  |||          |||   || |     |  ||||      |   | |    |   |  |        | |     |||| ||  | ||||| || |  ||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
-tattcatagttgtcttcctttcaagtcataatgtgatggaatatacgaatcgttacaacatgataaataattgaagtttgctggaataatatttatgcagGTACGACGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGACTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G39130.1 (Glycine max), 3'ss of exon 7
tgacagactgttagggataacacaacctatga-caatttataataactacgtttgtcctttcttccatgttcacagcatcttta-ataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
     || |   || || |     |  |||   | ||||| | ||  |   | |    |||     |||       |   |||| | ||| | ||  | |||||||||||||  ||| |  |||||| ||||||| ||||| ||| | |||||||| |||||||||||| |||||||||| || |||||||| |||||    
---gtgagtac-agtgacattttgatttatcttctatttaaactaggtggatatcatatttaagaaatgcatgtgcctaatttagaaaattttccaatacagATATGGTGTTAGTGGCTATCCTACACTGAAGTTTTTCCCAAAGAGCAACAAAGCTGGTGAAGATTATAATGGTGGCCGTGATTTGGATGATTTTGTAGCA

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G41690.1 (Glycine max), 3'ss of exon 7
-tgacagactgttagggataacacaacctatga-caatttataataactacgtttgtcctttcttccatgttcacagcatcttta-ataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
 |||   || ||  || |||     |  |||   | | ||| | ||  |  || |    |||     |||       |   |||| | ||| | ||  | |||||||||||||  ||| |  |||||| ||||||| ||||| ||| | |||||||| |||||| ||||||| |||||||| || |||||||| |||||    
gtga-gtacagt--ggcatattttgatttatcttctagttaaactaggttggtatcatatttaagaaatgcatgtgcctaatttagaaaatttgccaatacagATATGGTGTTAGTGGCTATCCTACACTGAAGTTTTTCCCAAAGAGCAACAAAGCTGGTGAAAATTATGACGGTGGCCGTGATTTGGATGATTTTGTAGCA

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G24520.1 (Glycine max), 3'ss of exon 9
tgacagactgttagggataacacaacctatgacaatttataataactacgt-ttgtcctttcttccatgttcacagcatctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
| || |    | ||  |  | | || | |    |    ||||  |     | ||      |  |  ||  |   ||  |   ||  |  |||  | ||||| |||| |||   ||| || ||||| |||||||||||||| ||||| |||||||| |||||||| || |  |||||  | |||||||||||||||||    
ttacggtggttaagaaaacaaaaaatccagcgaagaggataaagatggaatattacaacatgataaataattgaagt-ttgctagaataatatttatgcagGTATGATGTGAGTGGATTTCCTACCTTGAAGTTCTTCCCAAAGGGCAACAAAGCTGGTGAAGAGTACGGAGGTGGAAGAGACTTGGATGACTTTGTGGCT

upper sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 7
tgacagactgttagggataacacaacctatgacaatttataataactacgtttgtcctttcttc-catgttcacagcatctttaataatatacc-tctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
 |  ||   |  ||| ||   |  |   ||  | |||| || |   ||   |  |   |  |||  |    || | |||    |  | ||     | | ||||||||| ||   ||| ||||| |||||||| |||||||| ||||  |||||||| ||| | |||||||| |||||| |||| || ||||||||||| |  
-gtaagttggacaggcattttatta---ataccgattt-tactgtttaaagtcatttatgtttcataaaaccaaaacataaagacaagtaccttatattcagATATGGAGTGAGTGGATTCCCAACATTGAAATTCTTCCCAAAGGACAACAAAGCTGGTCACGATTATGACGGTGGCAGGGATTTAGATGACTTTGTAAGC

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|241994843|gb|GR421187.1|GR421187
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCCGAAAA                         ATATGGTGTTTTTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32847846|gb|CD987527.1|CD987527
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGCGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|148929737|gb|EC876638.2|EC876638
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|60350336|gb|DN217309.1|DN217309
EST:     CTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: CTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32849063|gb|CD988744.1|CD988744
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|24934298|gb|CA452516.1|CA452516
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|20507142|gb|BQ279504.1|BQ279504
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAAC
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAAC
EST: gi|74239675|gb|DT647589.1|DT647589
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|28575999|gb|CB281891.1|CB281891
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGGGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|5922104|gb|AW055498.1|AW055498
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|67039449|gb|CO465704.1|CO465704
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACCCTGACTTGCCTGAAAA                         ATAT-GTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCNTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32848046|gb|CD987727.1|CD987727
EST:     GTTGTGATTGCCGATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|71445959|gb|DR827009.1|DR827009
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|31355506|gb|CD439863.1|CD439863
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|148961930|gb|EE012722.2|EE012722
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|6994161|gb|AW453375.1|AW453375
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTC
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTC
EST: gi|71326461|gb|DR799910.1|DR799910
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32933996|gb|CF038808.1|CF038808
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32846747|gb|CD986428.1|CD986428
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|148929195|gb|EC874742.2|EC874742
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|33285626|gb|CF075421.1|CF075421
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTC
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTC
EST: gi|211001445|gb|FL439450.1|FL439450
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32916349|gb|CF021161.1|CF021161
EST:     GCTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|211497907|gb|FK991939.1|FK991939
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|149096330|gb|EE182049.2|EE182049
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|149044453|gb|EE047574.2|EE047574
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32849041|gb|CD988722.1|CD988722
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|78084675|gb|DV513068.1|DV513068
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|32846337|gb|CD986018.1|CD986018
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|40336546|gb|CK370616.1|CK370616
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|33101223|gb|CF061183.1|CF061183
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|37393543|gb|CF634037.1|CF634037
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCNTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|21891538|gb|BQ744751.1|BQ744751
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGT
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGT
EST: gi|148955860|gb|EC901555.2|EC901555
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGANAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
EST: gi|213192265|gb|FM195988.1|FM195988
EST:     GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAA                         ATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA
genomic: GTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAA

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: 48 (upstream exon), 49 (downstream exon)
Score: 403

ATTTATGAGAAGCTGGCTTCAGTTTTCAAGCAGGACGACGGTGTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 316

ATTTATGAGAAGCTGGCTTCAGTTTTCAAGCAGGACGACGGTGTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 268

ATTTATGAGAAGCTGGCTTCAGTTTTCAAGCAGGACGACGGTGTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 659

ATTTATGAGAAGCTGGCTTCAGTTTTCAAGCAGGACGACGGTGTTGTGATTGCCAATATTGATGCTGACAAGCACACTGACTTGGCTGAAAAgtatgcattc ... acctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacgtttgtcctttcttccatgttcacagcatctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG
                                 ctttaat  putative branch site (score: 659)
                                            tacctct  putative PPT
                               atctttaataatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgacagactgttagggataacacaacctatgacaatttataataactacgtttgtcctttcttccatgttcacagcatctttaataatatacctctgcagATATGGTGTTTCTGGTTTCCCTACATTGAAGTTCTTCCCTAAGGGAAACAAAGCCGGTGAAGATTATGATGGTGGCCGGGACTTGGATGACTTTGTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - cacaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagcatc