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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA

Basic information

species Zea mays
transcript GRMZM2G376727_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G376727_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA
                                |  |   | |||   || |  |  || |  |   |  |   || | || ||||  | |    |  || |  ||  ||| | |  | ||        | |||| | | || | ||||||||||| ||||| |||||| |  |||| ||| |||| |||||||| | ||| || |||||||||||||||    
-------------------------------gtttaatctgttacacttacacacttttttaaaacttcagc-tcttttttttttaaagaaaaatgctgttctgct-atgct-tgcaattgctcaattttttttttgtatggtgaagGAGGCCTATTCAACCCCCATCCTTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG----

upper sequence: GRMZM2G376727_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G27250.3 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcc-----tcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA
                                                     |||  || | |   |||  | ||     |||    |||  || | ||  |  ||||         | |   | | | || |  ||| | ||  |   ||||||| || ||||||||||| || ||  ||||| ||||  |||| |||| ||| ||||||||||||||||||    
---------------------------------------------------ccatgccattc-tgccgtagcagccatggctctgccatttagcaacactgatttttggtgagcaacttgtttcttattgtagtagtttttttccctattagGAGGCATATTCAACTCCCATATTGCCTTTGGATGTTCTTTCTGATAGACCTCCCGAGAAGAAGTTTGAATGG----

upper sequence: GRMZM2G376727_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05530.2 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgtta-tacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA
                                                       |||| ||  | ||| | |       |||||||||  |   | ||| |  ||   | || | |  ||     || |  ||| | |   |   ||||||| || ||||||||||| || ||  ||||  ||||  |||| |||| ||||||||||||||||||||||||| 
-------------------------------------------------------gttaatatctgttggaattgttgtctattttttattttatttttggtcagcaacttgtttcttattg----tagtagttttttttcctattagGAGGCATATTCAACTCCCATATTGCCTTTGGACGTTCTTTCTGATAGACCTCCTGAGAAGAAGTTTGAATGGGTAT

upper sequence: GRMZM2G376727_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05530.1 (Glycine max), 3'ss of exon 3
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgtta-tacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA
                                                       |||| ||  | ||| | |       |||||||||  |   | ||| |  ||   | || | |  ||     || |  ||| | |   |   ||||||| || ||||||||||| || ||  ||||  ||||  |||| |||| ||||||||||||||||||||||    
-------------------------------------------------------gttaatatctgttggaattgttgtctattttttattttatttttggtcagcaacttgtttcttattg----tagtagttttttttcctattagGAGGCATATTCAACTCCCATATTGCCTTTGGACGTTCTTTCTGATAGACCTCCTGAGAAGAAGTTTGAATGG----

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|5006027|gb|AI712089.1|AI712089
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCCCAAAGNCTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|15590113|gb|BI674729.1|BI674729
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|31611983|gb|CD568605.1|CD568605
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|7135675|gb|AW498208.1|AW498208
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCNCAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|76285099|gb|DV024667.1|DV024667
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|9255123|gb|BE345591.1|BE345591
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|15053451|gb|BI358996.1|BI358996
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60347158|gb|DN214131.1|DN214131
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|15590463|gb|BI675079.1|BI675079
EST:     AAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCCCTGGATATTCTCGCTGAGAGACTT
genomic: AAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|7137614|gb|AW499182.1|AW499182
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|78080233|gb|DV508645.1|DV508645
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|37377085|gb|CF625114.1|CF625114
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTTCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|149106143|gb|EE291820.2|EE291820
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60346405|gb|DN213378.1|DN213378
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60355754|gb|DN222727.1|DN222727
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|89249519|gb|DY621305.1|DY621305
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|30706031|gb|CD059006.1|CD059006
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|78107599|gb|DV526017.1|DV526017
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60354184|gb|DN221157.1|DN221157
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211379488|gb|FL165247.1|FL165247
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|32829808|gb|CD969486.1|CD969486
EST:     ACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: ACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|38671702|gb|CD219303.2|CD219303
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|21987232|gb|BQ778760.1|BQ778760
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|32828788|gb|CD968466.1|CD968466
EST:     GTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211340832|gb|FL479597.1|FL479597
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|24769483|gb|CA404612.1|CA404612
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTC--                         -AGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|78081691|gb|DV510103.1|DV510103
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211354951|gb|FL243591.1|FL243591
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACT
EST: gi|87156435|gb|DY401224.1|DY401224
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60356569|gb|DN223542.1|DN223542
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|74243940|gb|DT651854.1|DT651854
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211354953|gb|FL243593.1|FL243593
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|16919381|gb|BM074163.1|BM074163
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|24765720|gb|CA400879.1|CA400879
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|60347341|gb|DN214314.1|DN214314
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211130310|gb|FL066377.1|FL066377
EST:     TGTTCCCACAAAGACTGCTCTTSAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: TGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
EST: gi|211130311|gb|FL066378.1|FL066378
EST:     GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAG                         GAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT
genomic: GTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTT

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: 158

TGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 244

TGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 246

TGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 208

TGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACTGCTCTTCAGgtcccccccc ... tctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA
                              atctaat  putative branch site (score: 208)
                                             tctgttc  putative PPT
                   tatttagttaaatcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcccccccccccccccccccgacctctactatacataattttagtgtttcttatgttatacatcttgtattatcctcttattttttacatcgctattgcttggcccatggtatttagttaaatctaatgttttgtatctgttcaagGAGGCCTACTCAACTCCCATCTTCCCACTGGATATTCTCGCTGAGAGACTTCCTGAGAAGAAGTTTGAATGGGTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT