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

...taagacagataacaactacagtatttaaatagcaacatagctctgaacctatccttttaactcctcttgtgcacataactgatgcttttcttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA

Basic information

species Oryza sativa
transcript LOC_Os06g29180.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G124919_T01 (Zea mays), 3'ss of exon 3
taagacagataacaactacagtatttaaatagcaacatagctctga-acctatccttttaactcctcttgtgcacataactgatgcttttcttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
| ||   ||        |||  |  | | ||  || | | | || | | || | | | |   | ||  | |  ||  ||    | || |   |||| ||||| ||||||||||||||||| || |||||||||  ||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
ttagtttgaggtttggaacacgaccttagta-taaaaaaacactaatatcttttcatatttgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCGGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 1
taagacagataacaactacagtatttaaatagcaacatagctctgaacctatccttttaactcctcttgtgcaca-taactgatgcttttc-ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
  ||   ||        |||  |  | | ||  || | | | || ||  | |  |  || ||   |||||    | ||| ||||   | |   |||| ||||| ||||||||||||||||| || ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
-tagtttgaggtttggaacacgaccttagtataaaaaaaacact-aatatcttttcatatctgtacttgtttcgactaaatgatttctataactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G049811_T01 (Zea mays), 3'ss of exon 2
taagacagataacaactacagtatttaaatag-caacatagctctgaacctatccttttaactcctcttgtgcacata-----actgatgcttttct-----tgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
            | |  ||  | ||  |  ||    || |  |||||  | ||  |  | |  | | || || || |      ||| |    |||||     |||| ||||| ||||||||||||||||| || ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
-----------cccatcacctttttctagcagatggcagaaatctgatacaattttcatgagacttgttctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 3
taagacagataacaactacagtatttaaatagcaacatagctctgaacctatccttttaactcctcttgtgcaca-taactgatgcttttc-ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
| ||   ||        |||     | | ||  || | | | || ||  | |  |  || ||   |||||    | ||| ||||   | |   |||| ||||| ||||||||||||||||| || ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
ttagtttgaggtttggaacacggccttagta-taaaaaaacact-aatatcttttcatatctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G147714_T01 (Zea mays), 3'ss of exon 3
taagacagataacaactacagtatttaaatagcaacatagctctgaacctatccttttaactcctcttgtgcaca-taactgatgcttttc-ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
| ||   ||        |||  |  | | ||  || | | |  | ||  |||  |  || ||   |||||    | ||| ||||   | |   |||| ||||| ||||||||||||||||| || ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
ttagtttgaggtttggaacacgaccttagta-taaaaaaacaat-aatatattttcatatctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

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|88407681|gb|CI607815.1|CI607815
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|33658449|gb|CF281062.1|CF281062
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88362043|gb|CI607043.1|CI607043
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCAACCCTTTC-
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88825622|gb|CI776187.1|CI776187
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATTGTCTNNTGATCACCAACCCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCAT-GTCT--TGATCACCA-CCCC
EST: gi|29669366|gb|CB665641.1|CB665641
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88762502|gb|CI772058.1|CI772058
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88727625|gb|CI751280.1|CI751280
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88425288|gb|CI564805.1|CI564805
EST:     CAAGGGGCATCACTAAATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|33793158|gb|CF322460.1|CF322460
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|29659275|gb|CB655550.1|CB655550
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|568232|gb|D39068.1|D39068
EST:     CAAGGGGCATCACTACATTGTCACCGACGNCAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTNAGGATATGCATGTCTTGATCACCA
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCA
EST: gi|88397850|gb|CI583168.1|CI583168
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88388321|gb|CI627860.1|CI627860
EST:     CAAGGGGCATCACTACATTGTAACCGACGACAAGGAGGGGCTAAACAGAG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|3762835|gb|AU029587.1|AU029587
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|29658972|gb|CB655247.1|CB655247
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88430317|gb|CI567336.1|CI567336
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88445083|gb|CI589561.1|CI589561
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCAAATTGAGGATATGCATGTGTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88827359|gb|CI777924.1|CI777924
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACC
EST: gi|88415236|gb|CI584059.1|CI584059
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88430290|gb|CI567309.1|CI567309
EST:     CAAGGGGCATCACTACATTGTCAACGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCN
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|66915088|gb|CX101936.1|CX101936
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88370984|gb|CI595096.1|CI595096
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88456150|gb|CI567790.1|CI567790
EST:     CAAGGGGCATCACTACATTGTCACAGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88723458|gb|CI746968.1|CI746968
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCA
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCA
EST: gi|88385973|gb|CI568641.1|CI568641
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|163929128|gb|EG712653.1|EG712653
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88355780|gb|CI626221.1|CI626221
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|29666819|gb|CB663094.1|CB663094
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88826949|gb|CI777514.1|CI777514
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGAT
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGAT
EST: gi|87024155|gb|CI291808.1|CI291808
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTG
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTG
EST: gi|29662258|gb|CB658533.1|CB658533
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88367681|gb|CI568453.1|CI568453
EST:     AAGGGGCATCACCTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCAACCCTTTCC
genomic: AAGGGGCATCAC-TACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88427411|gb|CI569449.1|CI569449
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|218480965|gb|FG963100.1|FG963100
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88824989|gb|CI775554.1|CI775554
EST:     CAAGGGGCATCACTACATTGTCACCGACGACNAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88324583|gb|CI568202.1|CI568202
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88363140|gb|CI616297.1|CI616297
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88371347|gb|CI600195.1|CI600195
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88343604|gb|CI622979.1|CI622979
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88317277|gb|CI627926.1|CI627926
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88345652|gb|CI629913.1|CI629913
EST:     -AAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88745628|gb|CI768988.1|CI768988
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|29663025|gb|CB659300.1|CB659300
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|29646499|gb|CB651506.1|CB651506
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88393808|gb|CI621303.1|CI621303
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|58687762|gb|CK076449.1|CK076449
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88343194|gb|CI627154.1|CI627154
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88402450|gb|CI596311.1|CI596311
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88364952|gb|CI616371.1|CI616371
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|702416|gb|D48707.1|D48707
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTNC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88300439|gb|CI584858.1|CI584858
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|86905798|gb|CI290932.1|CI290932
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
EST: gi|88390489|gb|CI607525.1|CI607525
EST:     CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCG                         AGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC
genomic: CAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCC

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 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 75 (downstream exon)
Score: 242

TTCGTCGGCTGCGTGGAGGGCGCTCTCGGCATCCGCGAATGGCTTGAGTCCAAGGGGCATCACTACATTGTCACCGACGACAAGGAGGGGCTAAACAGCGgtaagtggta ... ttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacctatccttttaactcctcttgtgcacataactgatgcttttcttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
                                       cttttcttgttgtc  CT-rich tract
         ttttaact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taagacagataacaactacagtatttaaatagcaacatagctctgaacctatccttttaactcctcttgtgcacataactgatgcttttcttgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - aacaact
- - - - - - - - - - - - - - - - caacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgct