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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG

Basic information

species Zea mays
transcript GRMZM2G124103_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124103_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
----agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatct--ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
      |    ||| |  | |  || ||| ||  ||      || |  |    |          |||| ||| | |   ||||||||| |       ||    ||| |||  | |||||||||| ||||| |||||| |||| || ||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||
atgtgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattc------ttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG

upper sequence: GRMZM2G124103_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.1 (Oryza sativa), 3'ss of exon 1
-agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatct--ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
   |    ||| |  | |  || ||| ||  ||      || |  |    |          |||| ||| | |   ||||||||| |       ||    ||| |||  | |||||||||| ||||| |||||| |||| || ||||| ||| ||||||| ||||| |||||||||||||| || ||||| ||||| ||||
tgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattc------ttccttcagcagCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG

upper sequence: GRMZM2G124103_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G20310.2 (Glycine max), 3'ss of exon 1
-------agctggcattgtgtgtcgatttatgttt-------acacgccttttttttttttgatctgaaacagttgaggtctatct-ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
          | || |  | ||| ||| ||||||        || ||| |  | |||  ||  |   |      |     ||||   |   |||| |||  |   |  |    |           ||||   |||||||| | |||||||| |||||||||||| ||||||| || || ||||| || |  |||||||||||           
ggctatttatttgcgtaat-tgttgatatatgttgctggaggactcgcttcatgtttactttcttgtagtttcatataacctattaaccatttcttaatagTTAGTGCT-TGTATTCATCACAGAATGGCATCCAACAGGGGTCAAGGTGGAATTCAGCAGTTGTTGGCTGCTGAACAAGAGGCACAACGGATTGTGAATGC-----------

upper sequence: GRMZM2G124103_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G20310.3 (Glycine max), 3'ss of exon 1
agctggcat-tgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
   ||  || |||   | ||    |   | || |  |  ||| || | | |    |  |  |     | || ||| | |   | |||  | || |   ||           ||||   |||||||| | |||||||| |||||||||||| ||||||| || || ||||| || |  ||||||||||| || | |  ||
---tgatatatgttgctggaggactcgcttcatgtttactttcttgtagtttcatataacctattaaccatttcttaat---agttagtgcttgtattca----tcacagAATGGCATCCAACAGGGGTCAAGGTGGAATTCAGCAGTTGTTGGCTGCTGAACAAGAGGCACAACGGATTGTGAATGCTGCAAAAAATG

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|211422294|gb|FK993270.1|FK993270
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGKGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|37399788|gb|CF637230.1|CF637230
EST:     GTTCGGTCCCCAATTTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|18164474|gb|BM334313.1|BM334313
EST:     GTTCGGTCCCCAATATTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419701|gb|FK993263.1|FK993263
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211302013|gb|FK993252.1|FK993252
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422303|gb|FK993279.1|FK993279
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|71770360|gb|DR968297.1|DR968297
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211512286|gb|FL437429.1|FL437429
EST:     CTCCG-TCCGCCCGCCCCGACCCAGWTCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: CTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422300|gb|FK993276.1|FK993276
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419698|gb|FK993260.1|FK993260
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422302|gb|FK993278.1|FK993278
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|45567279|gb|CK985493.1|CK985493
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211302012|gb|FK993251.1|FK993251
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGC-CCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|78121730|gb|DV540114.1|DV540114
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|113702958|gb|EE680462.1|EE680462
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422299|gb|FK993275.1|FK993275
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419692|gb|FK993254.1|FK993254
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419702|gb|FK993264.1|FK993264
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422292|gb|FK993268.1|FK993268
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422295|gb|FK993271.1|FK993271
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|32863979|gb|CF003661.1|CF003661
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|37398144|gb|CF636381.1|CF636381
EST:     GTTCGGTCCCCAATCTTCGCTTCCGTTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCTGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|116816205|gb|EC858924.1|EC858924
EST:     G-TCGGT-CCCAATCTCCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419703|gb|FK993265.1|FK993265
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|60347630|gb|DN214603.1|DN214603
EST:     CTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: CTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419693|gb|FK993255.1|FK993255
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422298|gb|FK993274.1|FK993274
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|32863459|gb|CF003141.1|CF003141
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|32937380|gb|CF042199.1|CF042199
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|44900255|gb|CK826800.1|CK826800
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|32863978|gb|CF003660.1|CF003660
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|16920247|gb|BM074571.1|BM074571
EST:     GTTCGGTCCCCAATTTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422301|gb|FK993277.1|FK993277
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419695|gb|FK993257.1|FK993257
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|37400054|gb|CF637372.1|CF637372
EST:     GTTCGGTCCCCAATTTTGGCCTCCGTTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|9732724|gb|BE511476.1|BE511476
EST:     CGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: CGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|37378850|gb|CF626141.1|CF626141
EST:     GTTCGGTCCCCAATATTCGCCTCCGCTCGGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|78121729|gb|DV540113.1|DV540113
EST:     GTTCGGTCCCCAATCTTCGCTTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|37378689|gb|CF626050.1|CF626050
EST:     CCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: CCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419696|gb|FK993258.1|FK993258
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211419691|gb|FK993253.1|FK993253
EST:     GTTCGGTCCCNAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
EST: gi|211422296|gb|FK993272.1|FK993272
EST:     GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAG                         GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: GTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT

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: 46 (upstream exon), 49 (downstream exon)
Score: 212

GCCCGCTCATTGCTTGCCTCCAGTCTCCAGAGAACGCGATTTGTTCTGTTGTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 398

GCCCGCTCATTGCTTGCCTCCAGTCTCCAGAGAACGCGATTTGTTCTGTTGTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 246

GCCCGCTCATTGCTTGCCTCCAGTCTCCAGAGAACGCGATTTGTTCTGTTGTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 444

GCCCGCTCATTGCTTGCCTCCAGTCTCCAGAGAACGCGATTTGTTCTGTTGTTCGGTCCCCAATCTTCGCCTCCGCTCCGCCCGCCCCGACCCAGATCAGgtaaccccgt ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
                         ctctgat  putative branch site (score: 444)
                                             ttttgccc  putative PPT
                                  tgaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agctggcattgtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
-gctggca
- - - - - - - - - - ttatgtt
- - - - - - - - - - - - - - -cacgcct
- - - - - - - - - - - - - - - - - - - - - - - tgatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gattctg