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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggcgcatcaaccctatctcacttaccaatccattgtgtattgtatggatcaattgttagttaccatgatagtttttttgtcacaatgggcaga...

Basic information

species Zea mays
transcript GRMZM2G040030_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040030_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g55850.1 (Oryza sativa), 5'ss of exon 2
TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggcgcatcaaccctatctcacttac--caatccattgt--gtattgtatggatcaattgttagttaccatgatagtttttttgtcacaatgggcaga
||||||||||| | ||||| |||||||||||||||||||| ||||||||||| |||||||||||||| || ||||||  || |||||| |||||| | ||||   || ||  ||  |||||  | | ||  |  || | | | |     |    ||| |  |  | ||||| | | ||| | ||    |      ||  |  | 
TGATATTGGATAGGACAAACTGGAAGACCAACATGCTGACCGCTCTCTTGGTCCCTTACATTTTCTTTACACTGCCTGGTGGGCTGTTCTCTCTGTTGAGgtatatatgcaaat--accctgacacgctggctgcatttcttagcccacaaaacatgaaagatgtattagtaaac-tgacaattggcatcatgggattagggg-

upper sequence: GRMZM2G040030_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv00s0207g00220.t01 (Vitis vinifera), 5'ss of exon 2
TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggcgcatcaaccctatctcacttaccaatccattgtgtattgtatggatcaattgttagttaccatgatagtttttttgtcacaatgggcaga
||||| ||||||| ||||| ||||  ||||||||||||||  | || |||||||||||||||||||| |  || |||  |||  ||||     |  | ||||  ||   |   |    |  ||| |||      || |  | | |||| |   |||   || ||| |     | ||  | || | ||| ||         
TGATACTGGATCGGACAAACTGGAGAACCAACATGCTGACTTCGCTTTTGGTTCCTTACATTTTCTTTAGTCTTCCTCCTGTATTGTTCAACTTATTGAGgt--tt---catcttttactgatcgcacacttttattctcttt-tatttttctgatatcttattaatagaactaattttattatggtc-cag--------
















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|211025292|gb|FL190145.1|FL190145
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|71332001|gb|DR802895.1|DR802895
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|24768158|gb|CA403287.1|CA403287
EST:     TGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: TGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|50328811|gb|CO523937.1|CO523937
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|71448580|gb|DR829630.1|DR829630
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|211027745|gb|FL190156.1|FL190156
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|60339980|gb|DN206953.1|DN206953
EST:     TGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: TGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|9732589|gb|BE511341.1|BE511341
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|93012048|gb|EB637568.1|EB637568
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|110204646|gb|EC886543.1|EC886543
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTTTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|71762702|gb|DR960639.1|DR960639
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTTTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|149097932|gb|EE183873.2|EE183873
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|74237689|gb|DT645603.1|DT645603
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|50328812|gb|CO523938.1|CO523938
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|21331512|gb|BQ486893.1|BQ486893
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76020028|gb|DT947198.1|DT947198
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|21331511|gb|BQ486892.1|BQ486892
EST:     GTTCCTTGCATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|78116265|gb|DV534652.1|DV534652
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|13149827|gb|BG320149.1|BG320149
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|19822212|gb|BQ048236.1|BQ048236
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|148964237|gb|EE015419.2|EE015419
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|60400506|gb|DN233313.1|DN233313
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76010700|gb|DT937870.1|DT937870
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|148972170|gb|EE023041.2|EE023041
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76292706|gb|DV032274.1|DV032274
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|148941605|gb|EC886544.2|EC886544
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|91053646|gb|EB164064.1|EB164064
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTTTGCGTTTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|67034400|gb|CO462950.1|CO462950
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76011638|gb|DT938808.1|DT938808
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76018464|gb|DT945634.1|DT945634
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|20336921|gb|BQ172551.1|BQ172551
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|71762888|gb|DR960825.1|DR960825
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|149010166|gb|EE041979.2|EE041979
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTTTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|148971030|gb|EE021866.2|EE021866
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|149097933|gb|EE183874.2|EE183874
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76010827|gb|DT937997.1|DT937997
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|5761786|gb|AI966939.1|AI966939
EST:     TTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: TTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|9254931|gb|BE345399.1|BE345399
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|20208279|gb|BQ134368.1|BQ134368
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGCTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|76934209|gb|DV173767.1|DV173767
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|148972171|gb|EE023042.2|EE023042
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATT
EST: gi|211025293|gb|FL190146.1|FL190146
EST:     GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAG                         AGGAGAGGTGGGGAAATGGATTGCG
genomic: GTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCG

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: 47 (upstream exon), 49 (downstream exon)
Score: 167

TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATTCTTTCCACGACACTTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 459

TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATTCTTTCCACGACACTTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 456

TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATTCTTTCCACGACACTTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 387

TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggc ... gaattttcagAGGAGAGGTGGGGAAATGGATTGCGATTATTGCTGTTATTCTGCGTCTATTCTTTCCACGACACTTCCCAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATATTGGATCGCACAAATTGGAAGACCAACATGCTGACAGCTCTCTTGGTTCCTTACATTTTCTTCACCCTGCCTAATGTGCTGTTTTCTCTGATCAGgtgattaggcgcatcaaccctatctcacttaccaatccattgtgtattgtatggatcaattgttagttaccatgatagtttttttgtcacaatgggcaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT