Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc...

Basic information

species Zea mays
transcript GRMZM2G025242_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g32230.1 (Oryza sativa), 5'ss of exon 4
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc-----
|||| | ||||||||||||||||| |||||||||||||||||||| ||||||||||| ||||| |||||||||||||||||||||||||||||||||||||||  ||| |  | |   ||  || |    |      | ||   ||  |||||| |   ||||||  |   ||      ||   |  ||   |   | |      
GGTTATTTTCTACCACTTGTTTGCAAAAGAGCTGGCACCTCACAAACCTCTTGCAAAATTCTTATGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtaatcatctactttt--ccctaaggaaaatgaaagccgtttcacaatttttctta---ctttatggaccaaataggttacttcttctttcttgtgtctgaatgc

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA15G07390.1 (Glycine max), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttc-cttcttcagct--tttctgaaagctttatttatataactttgcacgagtgattctcttgatttc-
|||  |||| |||||  ||||||||||||| |||||||| ||||||||||| || || ||||||||||||||||| ||||| |||||||  || ||||||||| ||  || |||   |  |  ||   | | || |   ||   | |  |     || | |||  ||   |   | |   |  | |   |     |  | |   
GGTGGTCTTTTACCATGTGTTTGCTAAAGAACTGGCACCACACAAGCCTCTAGCGAAATTCTTGTGCATCAAAGGAATTGTTTTCTTCTGCTTTTGGCAGgtaaactcattatc---atttatataatcatctgataagctgagttaaatgaccacttagagccataaaaa-gcagcacagagccaacaagagaataaactcga

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA13G31920.2 (Glycine max), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgc--acgagtgattctct-tgatttc
|||  |||| |||||  ||||||||||||| |||||||| ||||| ||||| || || ||||||||||||||||| ||||| |||||||  || |||||||||  |  ||   |   |   |||                 | |  | ||   |  |   |  || || |||| |   |   |   || |||||    |||| 
GGTGGTCTTTTACCATGTGTTTGCTAAAGAACTGGCACCACACAAACCTCTAGCTAAATTCTTGTGCATCAAAGGAATTGTTTTCTTCTGCTTTTGGCAGgtaagctcat--acagaaaaagaacaaaaaaacaaaaaaaacctgtgtttacatatagaatcaatataaataattggactagctgatggttctcaaccattt-

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G11200.1 (Arabidopsis thaliana), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc-----
|||    ||||||||  | |||||||||||| |||  ||||| ||||||||| |||||||| ||||| |||||||||| || |||||||  || ||||||||| | |  | || || | ||   |    |  ||     | |   |          ||| | | |   ||  | |||   | |   | |  ||   |||      
GGTGAAATTCTACCATGTTTTTGCTAAAGAGTTGGAGCCTCATAAGCCTCTTACAAAGTTCATGTGCGTCAAAGGGATAGTGTTCTTCTGCTTTTGGCAGgtaaatacttaatttccaactttttctttgcctgccaaatgccaaaatcac-----aagttctctgcctactagtttcttcaatcaactaactgagtttgatgag

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G21570.1 (Arabidopsis thaliana), 5'ss of exon 4
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc--
 ||  | ||||||||  |||||||||| ||||| || ||||| || || || ||||||||| | ||||||||||| |||||||||||    || ||||||||| |  | |    |  | | | |   ||  |     |    ||   | | | || |   | || | |||  | | |       |||||||    | | |  
TGTGATATTCTACCATGTGTTTGCTAAGGAGCTTGCTCCTCATAATCCACTCGCAAAGTTCCTCTGCATCAAAGGAATTGTCTTCTTTGTCTTTTGGCAGgta-atgt-ttgcattaatcagta-aacccctcaaaacaagatttctcatgtttgga---tatactcataagattcttt-----tgattctga-aactgcag

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv00s0404g00020.t01 (Vitis vinifera), 5'ss of exon 4
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtata----catatcatct-cgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc
 ||  | || || ||  ||||||| || ||| ||  ||| |||||||| ||  |||||||| ||||| ||||||||||||| |||||||  || ||||||||| |    || |||  || |   || ||| ||  | |      |  |  ||    |  || | ||| |   |   || |||  | |  |||  | |||      
TGTCTTGTTTTATCATGTGTTTGCAAAGGAGTTGAAACCACACAAGCCCCTGACAAAGTTCATGTGCGTCAAAGGGATTGTTTTCTTCTGCTTTTGGCAGgtacaacttcacatccccttccttcttaattgctttgtaaaagttgttgaagagcattggataacttgaa--agtaaaatttctatggttgaaccccttcta---

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S233_35V6.2 (Physcomitrella patens), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctg--aatggccgtttggttccttc--ttcagcttttctgaa--agctttatttat-ataactttgcacgagtg-attctcttgatttc------------------------------------------
 ||| | || || || ||||||  |   ||||| || || ||||| || ||||| ||  |  |||||||||||||  | || ||||||||||||||||||||| |  |      || |  |   ||   | |     ||   ||  ||   ||    || |  || || | ||||  | | | ||   |  |  ||||| ||     |                                          
TGTTGTATTTTATCATTTGTTTCATGCCGAGCTAGCCCCCCACAATCCCCTTGCCAAAATTCTGTGCATCAAAGGTGTCGTTTTCTTCTCTTTCTGGCAGgtaaagtttctggatccatttaccaactacagagatattgtgtcatttggactagcgtgcactagtttgagttattgttattatgtctgcatctattctgttatggacaagtgcttaatatttaacacccgtctacttttcattttccag

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ26085 (Selaginella moellendorffii), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgta-tacatatcatctcga-----cctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc
| | |  ||||||||  | || || || ||| ||||  ||||||||||||| || |||||| |||||||||| ||  | ||||| ||||| |||||||||||| | ||| || ||||       || | |  || | |   | | |  |||    |||||   ||                                         
GATCCAATTCTACCATCTCTTCGCCAAGGAGTTGGCTTCTCACAAGCCTCTCGCGAAGTTCCTGTGCATCAAGGGAGTGGTCTTTTTCTCCTTCTGGCAGgtaatccatttcttctctctcactcccgcagagctgatct-tacttgtttcgttctttctctcag-----------------------------------------

upper sequence: GRMZM2G025242_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ04796 (Selaginella moellendorffii), 5'ss of exon 3
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgta-tacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc
  | |  ||||||||  | || || || ||| ||||  ||||||||||||| || |||||| |||||||||| ||  | ||||| ||||| |||||||||||| | ||| || ||||   |      || |    | || | | |      || |     ||                                       
CATCCAATTCTACCATCTCTTCGCCAAGGAGTTGGCTTCTCACAAGCCTCTCGCGAAGTTCCTGTGCATCAAGGGAGTGGTCTTTTTCTCCTTCTGGCAGgtaatccatttcttctctctcgctcccgcggagcagatcttacgtgtctcctttttctctctcag------------------------------------

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|14243341|gb|BG841006.2|BG841006
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|15426838|gb|BI542660.1|BI542660
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GATAATGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|6101982|gb|AW126452.1|AW126452
EST:     CTTGCGCATCAAAGGGATTGCCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: CTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|60338329|gb|DN205302.1|DN205302
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|32836133|gb|CD975811.1|CD975811
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|211387059|gb|FL031628.1|FL031628
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|5915529|gb|AW053170.1|AW053170
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|33102126|gb|CF062086.1|CF062086
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAAACCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|6918536|gb|AW400066.1|AW400066
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|76909053|gb|DV163199.1|DV163199
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|32909613|gb|CF014425.1|CF014425
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCCA
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACC-A
EST: gi|29945106|gb|CB815472.1|CB815472
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|91875864|gb|EB405821.1|EB405821
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|71321924|gb|DR797654.1|DR797654
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|86466501|gb|DY232871.1|DY232871
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|71770672|gb|DR968609.1|DR968609
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|211540403|gb|FL093890.1|FL093890
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|33101764|gb|CF061724.1|CF061724
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAAACCCACCCA
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACC-A
EST: gi|71770673|gb|DR968610.1|DR968610
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|88749866|gb|DY534007.1|DY534007
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|211540402|gb|FL093889.1|FL093889
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|32847550|gb|CD987231.1|CD987231
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCCA
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACC-A
EST: gi|45847047|gb|CN070990.1|CN070990
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCCATGTTTTAACCCAAGCAGGCGAGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|33102510|gb|CF062470.1|CF062470
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAAACCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|71305682|gb|DR788980.1|DR788980
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
EST: gi|12046988|gb|BF729127.1|BF729127
EST:     TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAG                         GGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT
genomic: TTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCAT

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: 49 (upstream exon), 21 (downstream exon)
Score: 17

GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatat ... atcgttgcagGGTTTTGCGCTCGATGTTTTAACCCAAGCAGGCGTGATCAAATCCCACCATTTCTGGCTGGACGTGGAGCACATCCAGGAGGCGATCCAGAACGTCCTGG




<











<


<









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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTCTCTTCTACCACTTGTTTGCTAAAGAGCTGGCACCTCACAAGCCTCTTGCAAAGTTCTTGTGCATCAAAGGGATTGTCTTCTTCTCTTTCTGGCAGgtatacatatcatctcgacctgaatggccgtttggttccttcttcagcttttctgaaagctttatttatataactttgcacgagtgattctcttgatttc

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG