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

gtatacgagtggtttcctgccccctctcttccaccgtctccatcccagcgcgctgcatgccaggtgtttgttcaaatgcgtcacccatgtttgtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA

Basic information

species Zea mays
transcript GRMZM2G068193_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068193_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g40170.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------gtatacgagtggtttcctgccccctctcttccaccgtctccatcccagcgcgctgcatgccaggtgtttgttcaaatgcg--tcacccatg-----tttgtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA
                                          | | |   | ||||  |   |||   |   |   || |   |   |  ||   |   |     ||| || |   ||| |  | |   |||     |  |     ||||||||||||||||||||||||||||||||| || |||  ||| |||||||| ||||||||||| |||||||||||||| ||||| ||||||||||||||||
gtatccatccggctacgaccgcttcagatctggatcaggggttcttcttcttgtttttttttcccgtgcacgcggggtgtttgtgtgaatgcctcgtccgt-gtttgtctggttcgatgggggtgattgatgggggatgcgcttgtgcagATCCTGATGTACCAGCTCTGCAAGGGCGTTGCTTTCTGCCATGGCCGCGGTGTGCTGCACCGTGACCTCAAGCCGCATAACCTGCTCATGGACCGCAAGA

upper sequence: GRMZM2G068193_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g40170.2 (Oryza sativa), 3'ss of exon 1
gtatacgagtggtttcctgccccctctcttccaccgtctccatcccagcgcgctgcatgccaggtgtttgttcaaatgcgtcacccatgtttgtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGT-GCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA
          | | | |     | |  ||| |   | |     | | | | ||||||  ||  |   |     |   || | |||        ||| |   || |   |       || || ||||  ||  | | |||  | | |||||  | |  |||  ||     ||||||  | ||| || |                
----------gctctgcaagggcgttgctttc--tgccatggccgcggtgtgctgca--ccgtgacctca---agccgcataacc--------tgctcatggaccgcaagaccatggcgct-caagATCGCCGACCTCGGGCTCAGCCGCTCGTTCACTGTCCC----TCTCAAGAAGTACACCCACGAG-------------
















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|38229860|gb|CF920173.1|CF920173
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCGGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|74241826|gb|DT649740.1|DT649740
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|28909866|gb|CB331138.1|CB331138
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71303929|gb|DR788085.1|DR788085
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTG
EST: gi|31910222|gb|CD651316.1|CD651316
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|211007547|gb|FL117996.1|FL117996
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTA
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTA
EST: gi|78105695|gb|DV524113.1|DV524113
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|148962492|gb|EE013355.2|EE013355
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|50339521|gb|CO534647.1|CO534647
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|94472111|gb|EB701069.1|EB701069
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71302774|gb|DR787498.1|DR787498
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|76018821|gb|DT945991.1|DT945991
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71329066|gb|DR801242.1|DR801242
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|50330881|gb|CO526007.1|CO526007
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|148980459|gb|EE027145.2|EE027145
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|101392380|gb|EB818119.1|EB818119
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71430257|gb|DR811307.1|DR811307
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|211010324|gb|FL118010.1|FL118010
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGT
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGT
EST: gi|26559168|gb|CA831403.1|CA831403
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|21331495|gb|BQ486876.1|BQ486876
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|91873818|gb|EB403775.1|EB403775
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|78120642|gb|DV539026.1|DV539026
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCCGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|78105696|gb|DV524114.1|DV524114
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71434993|gb|DR816043.1|DR816043
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|26456877|gb|CA828460.1|CA828460
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|93013229|gb|EB638749.1|EB638749
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|37426113|gb|CF650807.1|CF650807
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGG
EST: gi|74240147|gb|DT648061.1|DT648061
EST:     CCGGGGACACCGCAGCAACAACGAGAAGATCCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: C-GGGGACACCGCAGCAACAACGAGAAGATCCCC-GCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|50324043|gb|CO519169.1|CO519169
EST:     GCGGGCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: GCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|91876958|gb|EB406915.1|EB406915
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|76922226|gb|DV168907.1|DV168907
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|20811050|gb|BQ295528.1|BQ295528
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|22935791|gb|BU572066.1|BU572066
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|101384209|gb|EB814149.1|EB814149
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|22542169|gb|BU092607.1|BU092607
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|91878045|gb|EB408002.1|EB408002
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTC
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTC
EST: gi|91052242|gb|EB162660.1|EB162660
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|22819527|gb|BU499617.1|BU499617
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|78080019|gb|DV508431.1|DV508431
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|50325593|gb|CO520719.1|CO520719
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|31405808|gb|CD484540.1|CD484540
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|76916678|gb|DV166498.1|DV166498
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|78089074|gb|DV517465.1|DV517465
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|22819637|gb|BU499727.1|BU499727
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|89247624|gb|DY619410.1|DY619410
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|89757629|gb|DY687150.1|DY687150
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|74239490|gb|DT647404.1|DT647404
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|87156588|gb|DY401377.1|DY401377
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|29130844|gb|CB381548.1|CB381548
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71431253|gb|DR812303.1|DR812303
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|20506788|gb|BQ279341.1|BQ279341
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|211007538|gb|FL117987.1|FL117987
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGSCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGSCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|211319987|gb|FK976021.1|FK976021
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|71430256|gb|DR811306.1|DR811306
EST:     GGACCCCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: GGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|28873402|gb|CB329397.1|CB329397
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|211004772|gb|FL117982.1|FL117982
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTAACAGCTCTGCAA
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAA
EST: gi|50338054|gb|CO533180.1|CO533180
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|93015812|gb|EB641332.1|EB641332
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
EST: gi|22521145|gb|BU079956.1|BU079956
EST:     TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAG                         ATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG
genomic: TCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGG

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: 361

CATCCTCTACCTGGTCTTCGAGTACATGGACACCGACCTCAAGAAGTTCATCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 35

CATCCTCTACCTGGTCTTCGAGTACATGGACACCGACCTCAAGAAGTTCATCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 19

CATCCTCTACCTGGTCTTCGAGTACATGGACACCGACCTCAAGAAGTTCATCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 68

CATCCTCTACCTGGTCTTCGAGTACATGGACACCGACCTCAAGAAGTTCATCCGGGGACACCGCAGCAACAACGAGAAGATCCCCGCGGCCACCGTCAAGgtatacgagt ... gtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgcgctgcatgccaggtgtttgttcaaatgcgtcacccatgtttgtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA
                       ttcaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatacgagtggtttcctgccccctctcttccaccgtctccatcccagcgcgctgcatgccaggtgtttgttcaaatgcgtcacccatgtttgtgcccgcagATCCTGATGTACCAGCTCTGCAAGGGCGTGGCCTTCGTCCACGGCCGCGGGGTGCTGCACCGGGACCTCAAGCCGCACAACCTCCTCATGGACCGCAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA