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

...tgaattacagattccattcttatcaggttcaaaccaaagttaaccatttattttgttaaaataagaactttcatctgaacaaattatgtcactttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC

Basic information

species Physcomitrella patens
transcript PP1S174_48V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S174_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os03g54860.1 (Oryza sativa), 3'ss of exon 1
---------tgaattacagattccattcttatca---ggttcaaaccaaagttaaccat-ttattttg-ttaaaataagaactttcatctgaacaaattatgtcactttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC
         | ||   | ||  |  | |  ||||   | ||     |    ||  || | | |||| | ||    |    | |||     |         ||   |    |||| ||||||||||||||||| ||||||||||  || || || |   |  ||||||| | |||||  ||  |  | || |||||||  |  ||| | ||||||
gtaagctaatcaaaccccgaagctgtgcggatcaatggatttctctccgctttccccttgtcatttcgattcctgttctgattttgcgtcggcggcgcggtgaatcccctgcagCATGATCCCGCACAAGACCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGTCGTGACGCCGCCGTACGACAGGACCAAGCGCATGGTC

upper sequence: PP1S174_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os03g54890.2 (Oryza sativa), 3'ss of exon 1
-tgaattacagattccattcttatcaggttcaaaccaaagttaaccatttattttgttaaaataagaactttcatctgaacaaattatgtcactttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC
 | |  | | ||| ||||   | ||    ||          |   |||||   ||  | |  |  |  ||    |  | ||    |     |     |||| ||||||||||||||||| ||||||||||  || || || |   |  ||||||| | |||||| || ||  | || |||||||  |  ||| | ||||||
gtaagctgcggat-ccatggatttct--ctccgtttcccccttgtcatttcgatttctgatttctgttctgattttgggacctcgtggtgaatccccgcagCATGATCCCGCACAAGACCAAGAGGGGAGAGGCGGCGCTGGCAAGGCTGAAGGCGTACGAGGGCGTGCCGCCGCCGTACGACAGGACCAAGCGCATGGTC

upper sequence: PP1S174_48V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT4G13170.1 (Arabidopsis thaliana), 3'ss of exon 1
tgaattacagattccattcttatcaggttcaaaccaaagttaaccatttattttgttaaaataagaactttcatctgaacaaattatgtcactttg-----gcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC
|   |   |   | || |  | |   |||  ||  ||  | ||   ||| |||| ||       ||  |||  |   |   |||| |     ||||     |||| ||||| || |||||||| ||| | || |||||||| ||||  ||||||||||  || |||||  ||||| ||||||||||||| || ||||| ||||| 
tctttgtgaagattcagtgatgtagcgttttaataaagatgaagtctttcttttttttt-----gagttttggtgaaattgaatttttggcttttgtggttgcagGATGATTCCACACAAGACCAAGCGTGGTGCTGCTGCACTTGCTCGCTTGAAGGTTTTTGAGGGAATCCCACCTCCTTACGACAAGATTAAGAGAATGGTT

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|162190256|gb|FC366414.1|FC366414
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162244387|gb|FC423834.1|FC423834
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18342098|gb|BJ174133.1|BJ174133
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18335192|gb|BJ167210.1|BJ167210
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|15327169|gb|BI487693.1|BI487693
EST:     GACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: GACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|19790450|gb|BQ041876.1|BQ041876
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|15320115|gb|BI487678.1|BI487678
EST:     ACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: ACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18367117|gb|BJ199197.1|BJ199197
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGNGG                         AATGATCCCGCAC
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCAC
EST: gi|7047176|gb|AW477070.1|AW477070
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67718551|gb|BJ968810.1|BJ968810
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAGGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208377329|gb|DC927031.1|DC927031
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|7047506|gb|AW477400.1|AW477400
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162222723|gb|FC398977.1|FC398977
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|19788522|gb|BQ040783.1|BQ040783
EST:     CACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|7147939|gb|AW509861.1|AW509861
EST:     CCTGCCNGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|15730055|gb|BI741641.1|BI741641
EST:     CCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162244386|gb|FC423833.1|FC423833
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67704166|gb|BJ964399.1|BJ964399
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACA
EST: gi|67720038|gb|BJ970297.1|BJ970297
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208396589|gb|DC915901.1|DC915901
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37847561|gb|BJ605569.1|BJ605569
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37830887|gb|BJ588899.1|BJ588899
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|7147969|gb|AW509891.1|AW509891
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18343435|gb|BJ175473.1|BJ175473
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCAGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67703560|gb|BJ963793.1|BJ963793
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18331672|gb|BJ163683.1|BJ163683
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18353388|gb|BJ185443.1|BJ185443
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18330971|gb|BJ162977.1|BJ162977
EST:     CACCTGCCCGTATTTTGNGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|19788980|gb|BQ041030.1|BQ041030
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162264557|gb|FC441178.1|FC441178
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|7584197|gb|AW700095.1|AW700095
EST:     GACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: GACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208352447|gb|DC902050.1|DC902050
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37821176|gb|BJ579242.1|BJ579242
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67726988|gb|BJ977247.1|BJ977247
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAGGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162279052|gb|FC455079.1|FC455079
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162222722|gb|FC398976.1|FC398976
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37822633|gb|BJ580699.1|BJ580699
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCAGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162273291|gb|FC449259.1|FC449259
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18350508|gb|BJ182559.1|BJ182559
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162216966|gb|FC393084.1|FC393084
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67728130|gb|BJ978389.1|BJ978389
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162260392|gb|FC435031.1|FC435031
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|7147958|gb|AW509880.1|AW509880
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18352527|gb|BJ184581.1|BJ184581
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162273290|gb|FC449258.1|FC449258
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208394597|gb|DC928761.1|DC928761
EST:     CCAATCCACTTCCGNTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCNTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18351542|gb|BJ183594.1|BJ183594
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208349914|gb|DC913622.1|DC913622
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162260391|gb|FC435030.1|FC435030
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18339614|gb|BJ171641.1|BJ171641
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162280007|gb|FC456193.1|FC456193
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67719867|gb|BJ970126.1|BJ970126
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162240502|gb|FC416029.1|FC416029
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162240503|gb|FC416030.1|FC416030
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67709376|gb|BJ965192.1|BJ965192
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162280006|gb|FC456192.1|FC456192
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162216965|gb|FC393083.1|FC393083
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208380106|gb|DC927385.1|DC927385
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162190257|gb|FC366415.1|FC366415
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37829828|gb|BJ587840.1|BJ587840
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|162264556|gb|FC441177.1|FC441177
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|18349098|gb|BJ181147.1|BJ181147
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|19779277|gb|BQ039419.1|BQ039419
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|37833961|gb|BJ591973.1|BJ591973
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|67728296|gb|BJ978555.1|BJ978555
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
EST: gi|208348613|gb|DC913271.1|DC913271
EST:     CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGG                         AATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA
genomic: CCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAA

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: 32 (upstream exon), 35 (downstream exon)
Score: 32

AGTACTTGAGGTTCTTGAGGAAGAGGATGAACACCAAGCCCAGCAAGGGCCCAATCCACTTCCGCTCACCTGCCCGTATTTTGTGGAGGACCATTCGTGGgtaaattact ... actttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttattttgttaaaataagaactttcatctgaacaaattatgtcactttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC
                                           tcacttt  CT-rich tract
     ttttgttaaaataaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaattacagattccattcttatcaggttcaaaccaaagttaaccatttattttgttaaaataagaactttcatctgaacaaattatgtcactttggcagAATGATCCCGCACAAGACAAAGAGGGGAGCTGCTGCTCTTGAGCGCTTGAAGGCATTCGAGGGTGTCCCAGCTCCTTACGACAAAATGAAGAGGATGGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG