Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtgttttccctttatttatactcagcaactcctgtatttttgcaatctgtaatcatggctgttttgtggtttgacatgatgaattcttcaatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTGACAGGGAGCGTATCCCTGAACGTGTCGTTCATGCAAGGGGAGCCAGTGC

Basic information

species Oryza sativa
transcript LOC_Os06g51150.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g51150.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G088212_T02 (Zea mays), 3'ss of exon 1
tagtgttttccctttatttatactcagcaactcctgtatttttgcaatctg-taatcatggctgttttgtggtttgacatgatgaattcttcaatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTGACAGGGAGCGTATCCCTGAACGTGTCGTTCATGCAAGGGGAGCCAGTGC
   ||||||    |    ||    |  ||  | |||| ||  ||  ||  | |||  || |||| | | | |||  ||| ||||  || |||  | |||||| || |||||||||||||| |||||||| || ||||||||||| ||||| ||||| || ||||||||||||||||| || |||||| |||||||||||||
gtttgttttattgtatagtacctgcttcactttctgttttggtgttattagctaacaattgctgatatattgttccacacgatgtgtttttct-ttgacagGTCCAATCCTCCTTGAGGATTATCATCTAATCGAAAAGCTTGCTCAGTTCGACAGAGAACGTATCCCTGAACGTGTTGTGCATGCACGGGGAGCCAGTGC
















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|88394697|gb|CI622571.1|CI622571
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGGAAAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58590615|gb|CF988923.1|CF988923
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|88731109|gb|CI754722.1|CI754722
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|88390874|gb|CI611100.1|CI611100
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58655427|gb|CK044107.1|CK044107
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29657922|gb|CB654197.1|CB654197
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58692972|gb|CK081659.1|CK081659
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29628364|gb|CB633375.1|CB633375
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|55828144|gb|AU062662.3|AU062662
EST:     CGGCGCCCCCGTCTGGANCAACAACTCCGGCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|117240442|gb|CT842802.1|CT842802
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58684723|gb|CK073410.1|CK073410
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58663995|gb|CK052681.1|CK052681
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58678433|gb|CK067120.1|CK067120
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29623121|gb|CB628132.1|CB628132
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29619347|gb|CB624359.1|CB624359
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58666558|gb|CK055244.1|CK055244
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGACAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58596030|gb|CK006558.1|CK006558
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGC
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGC
EST: gi|58669083|gb|CK057769.1|CK057769
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29672050|gb|CB668325.1|CB668325
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58694437|gb|CK083124.1|CK083124
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58668961|gb|CK057647.1|CK057647
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|38474000|gb|CF958132.1|CF958132
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58608999|gb|CK037032.1|CK037032
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58598738|gb|CK009266.1|CK009266
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|33678219|gb|CF306458.1|CF306458
EST:     GCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: GCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58606081|gb|CK034114.1|CK034114
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACGGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58678741|gb|CK067428.1|CK067428
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58690037|gb|CK078724.1|CK078724
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58674207|gb|CK062893.1|CK062893
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCACTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58695135|gb|CK083822.1|CK083822
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58596063|gb|CK006591.1|CK006591
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58663183|gb|CK051869.1|CK051869
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58608126|gb|CK036159.1|CK036159
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCGTGGTGATTGAAAAGCTTGCACAGTTT
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATC-TGATTGAAAAGCTTGCACAGTTT
EST: gi|88424370|gb|CI607956.1|CI607956
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGATTATCATCTGATTGAAAAGGTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|2310411|gb|C26566.1|C26566
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|55411587|gb|CV723963.1|CV723963
EST:     CGGCGCCCCCGTCTGTTTTAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58599674|gb|CK010202.1|CK010202
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58613055|gb|CK040767.1|CK040767
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58666199|gb|CK054885.1|CK054885
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58658755|gb|CK047435.1|CK047435
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58692263|gb|CK080950.1|CK080950
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|88692668|gb|CI736243.1|CI736243
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58597710|gb|CK008238.1|CK008238
EST:     CGGCGCCCCCGTCTGGAACAACAACTGCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58597113|gb|CK007641.1|CK007641
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGGCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58601731|gb|CK012259.1|CK012259
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|33674814|gb|CF303053.1|CF303053
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58674842|gb|CK063529.1|CK063529
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|58671674|gb|CK060360.1|CK060360
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
EST: gi|29616047|gb|CB621059.1|CB621059
EST:     CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAG                         GCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG
genomic: CGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTG

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: 60

CATCGGCCGTCCAGCGGGAGCAATTCCACCTTCTGGACCACCAACTCCGGCGCCCCCGTCTGGAACAACAACTCCGCCCTCACCGTCGGAGAGCGAGgtactgagct ... caatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTGACAGGGAGCGTATCCCTGAACGTGTCGTTCATGCAAGGGGAGCCAGTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctgtaatcatggctgttttgtggtttgacatgatgaattcttcaatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTGACAGGGAGCGTATCCCTGAACGTGTCGTTCATGCAAGGGGAGCCAGTGC
                         gtttgac  putative branch site (score: 60)
                                        ttcttc  putative PPT
      taatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtgttttccctttatttatactcagcaactcctgtatttttgcaatctgtaatcatggctgttttgtggtttgacatgatgaattcttcaatcgacagGCCCTATCCTCCTTGAGGACTATCATCTGATTGAAAAGCTTGCACAGTTTGACAGGGAGCGTATCCCTGAACGTGTCGTTCATGCAAGGGGAGCCAGTGC

- - - - - - - - - - - - - - - ctcctgt
- - - - - - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgatg