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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag

Basic information

species Oryza sativa
transcript LOC_Os01g10840.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G045330_T02 (Zea mays), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag
 |||||||| |||||||||||||||||||| || |||||||||| |||||| ||||||||||||||||| || ||||| || ||||| |||||||| |||||| ||  |     ||| || ||| ||         ||||     | | ||   || ||| | |||||| ||||| |   | ||  ||  ||||||| | ||||
CTATCGTGCCCCTGAGCTCATATTTGGTGCGACGGAGTATACAAGTTCAATAGACATATGGTCAGCTGGTTGTGTTCTAGCTGAGTTGCTTCTTGGACAGgttggttgc-----cttcatataatga---------ttca-----cctaat---ataatg-tatgatgtgattctaacc-tcttggatcttgtgtatgtatcag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G472625_T02 (Zea mays), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttcc---ttgattagattatgctgtgatgttattctgattatatt---tcataatgtgtatttgtcag
|||||||||||| |||||||||||||| || || ||||||||||||||||| ||||||||||||||||| || ||||| || ||||| ||||||||||||||| ||  | ||   | ||   |   | ||   |  ||       |   ||||  | || ||| | || ||| ||||| |     |    || |      ||| | ||||
TTATCGTGCTCCAGAGCTCATATTTGGAGCGACGGAGTATACAACTTCAATAGACATATGGTCAGCTGGCTGTGTTCTAGCTGAGTTGCTTCTTGGTCAGgttggttgc-attcatataatgattaacctaatatttttgtacctcgatttgaccaaatcatg-tatggtgtgattctaacctcttggggtcttggatcttatgtatcag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G09090.1 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagt--cact-atatctttatctaaggaactgcaacattcaggttccttgattagattatgctgtga-----------tgttattctgattatatttcata-atgtgt-atttgtcag-----------------
 ||||||||||| || || ||||||||||| || |||||||||| ||||||||| || ||||||||||| || || ||||| ||| | ||| | || |||||| ||  || | || | |||   | |   | |   |     | || |  | ||  || | | |||  |           |||| |  | ||||| || ||   |||||| || ||  |                  
CTATCGTGCTCCAGAACTTATATTTGGTGCCACAGAGTATACAAGTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAGgtttgtgtcattgatttgttttcattaattattattattactatgtactattatatgaatctactgcaaaatgaagtaaatgttctcttaattattttccacccatgtgttatctgaaataatttaaacttttgcag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G12370.1 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttccttgatta--gattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag----------
 ||||| || || || || || |||||||| || |||||||| ||||||||||| || ||||||||||| || || ||||| ||| | ||| | || ||||||  |  |  |   ||| | | |      | |   | ||  |    | |||    || ||  | |  |  | | |||  || ||   ||       |    |             
CTATCGGGCACCGGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGCCAGgtttatgtcattgcttttcttttattgttagaatggtgcaaatagtctcattttcaataattatttagttatttactgcctacatgctatctgacacacaaatggaatttttgaag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G30060.2 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaac-att--caggttccttgattagattatgctgtga-----------tgttattctgattatatttcataat-gtgt-atttgtcag-----------------
 ||||| ||||| || || |||||||| || || |||||||||| ||||||||| || ||||||||||| || || ||||| ||  | ||| | || |||||| ||  |  |   ||  | | | ||| |   |  |||   | || |  | ||  || | | |    |           |||| |  | ||||| || ||   | |||| || ||  |                  
CTATCGCGCTCCAGAACTTATATTTGGCGCCACAGAGTATACAAGTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAACTTCTTTTGGGCCAGgtttgtgtcattgatttgttttcatgaattattattattactatgtactattatatgaatctaccacaaaatgaagtaaatgttctcttaattattttccacccttgtgttatctgaaacaatttaaacttttgcag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G36570.1 (Glycine max), 5'ss of exon 6
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactg-caacattcagg-------ttccttgattagattatgctgtgatgttattctgatt----ata-tttcataatgtgtatttgtcag
 |||||||| || || || |||||||||||||| || || ||||||||  |||| || ||||||||||| || || ||||||||  | ||||| || ||||||  | |   | |    | |  | | |||       ||||         |   ||  || | |||||  |  |||||||  ||  |    ||| ||||| ||| | | ||| |   
CTATCGTGCCCCAGAACTAATATTTGGTGCAACAGAATACACAACTTCTGTTGATATTTGGTCAGCTGGTTGTGTCCTTGCAGAACTTCTTCTAGGCCAGgttgttaaaattttaggcaacctatgcactaatgttgttcatacataatatgtttttctttgtttatga-gaaatgttatcttggcttctcatagtttcaaaatatttctttatag-

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G42840.1 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatc--tttat---ctaaggaactgcaacattcaggttccttgattagattatgctgtgatgttattctgatt----atatttcataatgtgtatttgtcag
 ||||| ||||| || || |||||||||||||| || || ||| |||| ||||| || ||||||||||| || |||||||| ||  | ||||| || |||||||  |  | |  |  | |||    ||| |     ||   || || ||  ||       ||    ||  |||| ||  ||| |    ||| ||   ||||| | |||     
CTATCGGGCTCCAGAACTAATATTTGGTGCAACTGAATACACACCTTCTATTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatactttctggcaatctatgcattaatgttgctcatacttaagattgttttgccttctttctgtgatatgtaatattgacttcccatagtttcaaatgtttgtttag---

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA04G06760.1 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagt--cact-atatctttatctaaggaactgcaacattcaggttccttgattagatt---------atgctgtga-tgttattctgattatatttcata-atgtgt-atttgtcag-----------------
 ||||| || || || ||||||||||| || || |||||||||| ||||||||| || ||||||||||| || || ||||| ||  | ||| | || |||||| ||  || | || | |||   | |   | ||  || | ||  |   ||   || |||         ||| ||| | |||| |  ||||||| |  ||   |||||| || |   |                  
CTATCGAGCACCAGAACTCATATTTGGGGCCACAGAGTATACAAGTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAACTTCTTTTGGGCCAGgtttgtgtcattgatgtgttttcattaattattgttac-tacaattctattatataaattttccacaaaatgatgtaaatgttctgttgattatctggcacccatgtgttatctaaaacaaattgaacttttgcag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA12G15470.2 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact-----atatctttatctaaggaactgcaacattcagg--ttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgt-cag
 ||||| ||||| || || |||||||||||||| || || ||| |||| ||||| || ||||||||||| || |||||||| ||  | ||||| || |||||||   | |     | |||| |   | |         | | | | |  ||  ||| ||   || ||   | |||||||  ||| |  |  |  |      | |||||  ||
CTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatttctggaaatctatgcattaatgttgttgatacttaagatttttttgctttctttctgggat-atgttatattgacttcacgtagtttctaatgtttgtatag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA05G29200.1 (Glycine max), 5'ss of exon 6
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacatt-caggt--tccttgattagattatgctgtgatgt-tattctgattatatttcataatgtgtatttgtcag--
 || || || || || || || |||||||| || |||||||| ||||||||||| || ||||||||||| || || ||||| ||| | ||| | || ||||||  |   |||  ||||   |  |  | |  ||   |  |  |  ||    |||| || |   | |  ||  || |   ||   |      ||||    ||| | |   
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGCCAGgtttat-gttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacatt-caggt--tccttgattagattatgctgtgatgt-tattctgattatatttcataatgtgtatttgtcag--
 || || || || || || || |||||||| || |||||||| ||||||||||| || ||||||||||| || || ||||| ||| | ||| | |||||||||  |   |||  ||||   |  |  | |  ||   |  |  |  ||    |||| || |   | |  ||  || |   ||   |      ||||    ||| | |   
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttat-gttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 6
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag
 || ||||| || ||||||||||||||||| || ||||| |||||||| ||||| || ||||| ||||| || |||||||| ||| | |||||||||||||| |   | | | ||        || |||      |||||   ||| ||  || |||    |  |   | ||| ||| |||||      ||||   | || |||
CTACCGTGCACCCGAGCTCATATTTGGTGCCACTGAGTACACAACTTCTATTGATATCTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTCTTCTTGGTCAGgtaaacaattctttc--------agtaaccagcttattcaatctccatgtgtatatttgcattaggactcattgtgactatatc-----atgttcttatg-cag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 5'ss of exon 7
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact-atatctttatctaaggaactgcaacatt---caggttccttgattagattatg---ctgtgatgttattctgattatatttcataatgtgtatttgtcag
 || || || ||||| ||||||||||| || || ||||||||||| |||||||| |||||||||||||| || || || || ||| | ||||| || ||||| |   | |   |     || |   |   ||||   |    ||   ||    | |   || |    |||||||   | | || | || |  | || | |   ||   |||
CTACCGAGCACCTGAACTCATATTTGGGGCCACAGAGTATACAACCTCAATTGATATATGGTCAGCTGGTTGTGTCCTAGCTGAGCTTCTTCTAGGCCAGgtgaacaatttgcacagcaattttcagttttgcactttctgccaatatctggaaatgtgttttagttctgtgataaaactttgttcatttgacttattttcggtt--acag

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 8
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttat--ctaaggaactgcaacattcag-gttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag
||| |||||||| || || |||||||||||||| || || |||||  | || ||||| |||||  ||||||||||||| || |||||||||||||||||||||    ||    || ||    ||     | |    || |||  ||  | | | |   ||   |||||  |                                    
TTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag------------------------------------

upper sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttat--ctaaggaactgcaacattcag-gttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag
 || |||||||| || || |||||||||||||| || || |||||  | || ||||| |||||  ||||||||||||| || |||||||||||||||||||||    ||    || ||    ||     | |    || |||  ||  | | | |   ||   |||||  |                                    
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag------------------------------------

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|218502288|gb|FG955716.1|FG955716
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|112786757|gb|EE591387.1|EE591387
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|218484555|gb|FG967869.1|FG967869
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|58653217|gb|CK041897.1|CK041897
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|58595981|gb|CK006509.1|CK006509
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGT
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGT
EST: gi|58604067|gb|CK014595.1|CK014595
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|58601487|gb|CK012015.1|CK012015
EST:     TGACATATGGTCGAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TGACATATGGTC-AGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|218482065|gb|FG957114.1|FG957114
EST:     GTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: GTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|218498171|gb|FG949783.1|FG949783
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
EST: gi|58668898|gb|CK057584.1|CK057584
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTT
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTT
EST: gi|29616355|gb|CB621367.1|CB621367
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCT
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCT
EST: gi|2317560|gb|C22614.1|C22614
EST:     TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTAATTCTTGGTCAG                         CCA-TGNTTCCTGGGGAGAGTGCT
genomic: TTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCT
EST: gi|58591644|gb|CF989952.1|CF989952
EST:     GTTCTTGCAGAGTTACTTCTTGGTCAG                         CCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG
genomic: GTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG

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: 57 (upstream exon), 75 (downstream exon)
Score: 28

TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcact ... tatttgtcagCCACTGTTTCCTGGAGAGAGTGCTGTTGACCAGCTAGTAGAGATAATCAAG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacattcaggttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA