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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG

Basic information

species Zea mays
transcript GRMZM2G110378_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 2
gtcagccccccctcccccctgac-ccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
||| |     | |   |  |    | |  || | || |     |  |  | |||   |         ||||  | ||| ||  | || | ||||||||||| ||||| || |||||||||||||| || |||||||||||||||||||||||||||||||| |||||||||||||| ||||| ||||||||||
gtctgattttctttttcttttttactcttacgtaatgtaatgtatgtcgtctcctgctgaatattacattacat-tacatttca-tcatgtagGCTGGTTTCGCTGGGGATGATGCACCAAGGGCCGTGTTCCCTAGTATTGTTGGCCGTCCTCGCCACACCGGTGTTATGGTAGGAATGGGGCAGAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G39380.2 (Glycine max), 3'ss of exon 2
gtcagcccccc-----ctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactct-tctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
|| ||  |         ||  |  | |     || |  || | |  |  ||   || |   |||   || | |||| | ||   |   || | |  |||| || |||||||| || ||||| || |||||||| || || |||||||||||||| ||||| || |||||||||||||| |||||||| || |||||||
gttagtactttgcagtttcttctgttatgtgtaattgcatctat-tagtctcggtttcgt-tatcaaacgatttatttctataatgatctgtgtacagGCAGGATTTGCTGGTGATGATGCTCCTAGGGCTGTGTTTCCCAGTATTGTTGGCCGACCTCGTCATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 2
gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
|| ||  |  | |      |          |  || || | |  |  | |    |||     | | | ||  | ||  ||    |     |||| || |||||||| |||||||| || |||||||| || || |||||||||||||| ||||| || |||||||||||||| |||||||| || |||||||
gttagtacttcgtggatttttgtttt--gttgcatgtgcatatgca-agtcttgagttcataagtgaata-atttattttaatatggaacagGCAGGATTTGCTGGTGACGATGCTCCTAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G15520.2 (Glycine max), 3'ss of exon 2
gtcagccccccctcccccctgacc--cccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactct-tctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG-
|| ||  |          ||         || |  || | |  |  |||  || ||  |||  | | | |||| |  |   ||  || | |  |||| || |||||||  |||||||| || |||||||| || || ||||||||||| || ||||| || |||||||||||||| |||||||| || ||||||| 
gttagtactttgcagtttcttgttagtgtaattgcatctatttagtcttggtttcat-tattgctcaatttatttaaatgatcatctgtgtacagGCAGGATTTGCTG-TGACGATGCTCCTAGGGCTGTGTTTCCCAGTATTGTTGGTCGACCTCGTCATACTGGTGTTATGGTTGGGATGGGTCAAAAGGATGC

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G05570.1 (Glycine max), 3'ss of exon 2
-----------------------gtcagccccccctcccccct-------gacccccaacttgat--ttgtacaacctt-atttccaagtatgccactaat-tatgtgtacct-tctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
                        | ||     | |   || |       |||     |||   |  |||   |   || |||   || ||||  | | || ||| | |   | || |   ||  ||||||||||||| || || ||||| || ||||| || ||||| || ||| ||||  | || ||||| |||||||| ||||| |||||||| ||||||||||
gttagaagatgttttgccaattgatgagtgtttcttgtgccattgaagaagactgttcactctgtgcttgcttagtattcattgttaaatatgatattgatatatatatttttctcgatgtttgcagGCTGGTTTTGCAGGTGATGATGCTCCTAGGGCCGTGTTCCCCAGCATTATTGGGAGACCACGCCATACTGGTGTAATGGTTGGGATGGGTCAGAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G32220.1 (Glycine max), 3'ss of exon 1
gtcagccccccctcccccctgacccccaacttg---atttgtacaacc-ttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
|| ||  |     |  |  ||         |       |||| || |   ||      |||     ||| | | | || |  ||    |     ||||||| |||||||| || ||||| || |||||||| || || |||||||||||||| ||||| ||||||||||||||||| |||||||| || |||||||
gttagtacttag-cggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttg-attttaatatggaacagGCTGGATTTGCTGGTGATGATGCTCCCAGGGCTGTCTTTCCCAGTATTGTTGGCCGACCTCGACACACTGGTGTTATGGTTGGGATGGGTCAAAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatt-tccaagtatgccactaattat-gtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
|| ||     |        |     |    | | | |   |  | || || | || || |   |||| | ||  ||    || ||   |   |||||||||||||||| || ||||| || || || || ||||| ||||||||||| |||||| | ||||||||||| ||||| || ||||| ||||| ||||
gtgagttagactgtttatttagatactgtatggttctaaccttctttgttgtacatgtgtaagactactgatcatgatttttgtatattaacagGCTGGTTTTGCTGGTGATGATGCCCCGAGAGCAGTGTTCCCAAGTATTGTTGGTCGTCCTAGGCACACTGGTGTCATGGTTGGTATGGGTCAGAAAGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 3'ss of exon 1
-gtcagccccccctcccccctgaccc----ccaacttgatttgtacaaccttatttccaagtatg----ccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
  | | |     ||     |||   |      || |||  ||     |   | |||   ||| |      |||  ||||   |   ||   |    |  ||||||| |||||||| || ||||| || |||||||| ||||| |||||||||||||| ||||| ||||| ||||| ||||| |||||||| || |||||||
attaaactgattctgtttgctgtggcgaggtgaatttgcattcagtgattatctttgttagttttgttttcacacatta-acgctgctcaaaaatgtgcagGCTGGATTTGCTGGTGATGATGCTCCGAGGGCTGTGTTCCCCAGTATTGTTGGCCGACCTCGACACACAGGTGTCATGGTTGGGATGGGCCAAAAGGATG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 3
----gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttc-----tagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
     |     |    |      ||  |    | | ||| |  || |  ||||   |||   |  |   || | ||| ||  ||       |       |||||||||| ||||| |||||||| ||  | ||||||||||| || |||||||| || ||  | |||||||| || ||||| || |||||||||||||| |
ctcttttgcatctttatttataatgggcagacattggatgtagactaatttatgatcaatcctctcga-aactgtgtttaattttggtgaattgaacgcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 3'ss of exon 2
--------gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttc-tagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
        |  |      | | |    | |  |  |      |   | ||    |  |  | || | |  ||    | |   |    |  | |   |  |||||||||| ||||| |||||||| ||  | ||||||||||| || |||||||| || ||  | |||||||| || ||||| || |||||||||||||| |
caattcatgctataatggcgttcatgataatact-attcaagtgacttcagttgtgctgtccagaacgaaaccgtgtttaattgtggtgaattgaacgcagGCTGGTTTCGCTGGAGACGATGCTCCCCGCGCTGTTTTCCCCAGCATTGTTGGGCGCCCCAGGCACACTGGAGTGATGGTCGGTATGGGACAGAAGGACG

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|84980900|gb|DW531249.1|DW531249
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211487937|gb|FL056167.1|FL056167
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTATT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|32831359|gb|CD971037.1|CD971037
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|23357755|gb|BU645404.1|BU645404
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|22520597|gb|BU079408.1|BU079408
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|50324857|gb|CO519983.1|CO519983
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|148958180|gb|EC904384.2|EC904384
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|20208181|gb|BQ134270.1|BQ134270
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCATGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|22473316|gb|BU037796.1|BU037796
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211482178|gb|FL056140.1|FL056140
EST:     GTGAGGACATCCAGCCTCTTRTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|148933752|gb|EC877683.2|EC877683
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211053781|gb|FL378940.1|FL378940
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAA                         GCTGGTTTTGCTKGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|31353495|gb|CD437852.1|CD437852
EST:     TTTTGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|148930312|gb|EE284707.2|EE284707
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|31664625|gb|CD573558.1|CD573558
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|5566829|gb|AI881695.1|AI881695
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211054598|gb|FL410434.1|FL410434
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATKGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211156552|gb|FL393684.1|FL393684
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211229696|gb|FL389661.1|FL389661
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211199201|gb|FL385611.1|FL385611
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211051966|gb|FL423476.1|FL423476
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211485061|gb|FL056160.1|FL056160
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211158138|gb|FL392766.1|FL392766
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|17921916|gb|BM259567.1|BM259567
EST:     GTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211410710|gb|FL390210.1|FL390210
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211048688|gb|FL410402.1|FL410402
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211471831|gb|FL184447.1|FL184447
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAT                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|148969649|gb|EE020509.2|EE020509
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|211413674|gb|FL415013.1|FL415013
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|149030164|gb|EE286304.2|EE286304
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
EST: gi|20507126|gb|BQ279497.1|BQ279497
EST:     GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG                         GCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT
genomic: GTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTT

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), 48 (downstream exon)
Score: 48

TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG


Block sizes: 49 (upstream exon), 37 (downstream exon)
Score: 11

TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG


Block sizes: 49 (upstream exon), 32 (downstream exon)
Score: 26

TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG


Block sizes: 49 (upstream exon), 33 (downstream exon)
Score: 11

TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccc ... actcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG
                        cactaat  putative branch site (score: 11)
                                     taccttctactcttct  putative PPT
                         actaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctagGCTGGTTTTGCTGGCGACGATGCACCAAGGGCTGTTTTCCCTAGTATTGTTGGCCGTCCTCGCCACACTGGTGTTATGGTAGGGATGGGACAGAAGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG