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

gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG

Basic information

species Physcomitrella patens
transcript PP1S152_141V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                  | |   |  |   |           |   |   || || || | |  || ||  | |             || | ||  |  | | |  |  |   |  |   |  |||   | | | | |||||||||||||||| |   |||||| ||||||| ||||||||| || ||| || | ||| ||| ||| ||||| |||||||||||||||||||  || | 
--------------------------------------------------gtgagctcct-cctccgacgccgcctccctccatcactctcgtctccagtttcccacccc----------tccacctccatctctctcctgatccgtcctccgtcgttttgctgtgcac-agGTGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcc---tccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                           |    |  |||   ||||      |  ||  |   ||   |||  ||   ||  |  | |  | | || |  |        |||    | |    | |||| |||||||||||| |   |||||| ||||||| ||||||||| || ||| || | ||| ||| ||| |||||||||||||||||| | ||||  || | 
--------------------------------------------------------------------------gtgagctcctcctcctcctcc----gcctgttcctcgt---cgacctccccctacatctctcctctcttctgatgcgcccggtttttgctgcgaggtgcagGGGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G034794_T02 (Zea mays), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                                  |   || || | || |    ||    |  |   |||     |   |  | | ||    | | |  | |  |||| |    | |    ||||||||||||||||| ||  |||||| ||| ||| ||||||||| |||||| |||| ||| ||| ||| |||||||||||||||||||||||||  || | 
---------------------------------------------------------------------------------gtgagctctcgtatttaccgctg-atggcctctccgattcgcatgcgtgggtcttaccgtgtgtcgtatcattttgtcgc-tgtggcacagGTGCGTACAAGTACGTCTCGGAGCTATGGCGGAGGAAGCAGTCCGATGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G024354_T01 (Zea mays), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgag-gtttgcgcagtgtgatcgagatctaactggagtttt-ttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                                               ||||    ||  | |||   ||    |  |   | |  |||     |  | | | | |  |  | |     ||   |||| |||||||||||| |   ||| || ||||||| ||||||||| || ||| |||| ||| ||| ||| |||||||||||||||||||||||||  ||   
----------------------------------------------------------------------------------------------gtgagcaaatgttctgtggtctctccgtgcaggcgaacctttgcgcgtcgtctctctctgatagtctgttcgtcgcgcagGGGCGTACAAGTACGTGTCGGAACTATGGAGGAGGAAGCAGTCGGACGTGATGCGCTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGTC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcg----agatctaactgga-gttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                                               |||| | |  ||     |  ||     |||     || | |  |||||    | | ||   |  ||| |   | |    |||| |||||||||||  ||  |||| | ||||||| |||||| || || ||| |||| ||| ||| ||| |||||||||||||||||||||||||  || | 
----------------------------------------------------------------------------------------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA01G41620.1 (Glycine max), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                       | | ||  ||||     |||   | ||  | || |  ||      | | |  || || | ||  |      | || ||| | ||  |   |||  |   |||||| ||||||||  |    ||||| ||| | |||||||||||||||||  |||| ||||||| ||| ||| | ||||||||||| |||||||  ||   
----------------------------------------------------------------------atatatagcttttggttattctgatggaattatgtgtggtac--ctgtgttggaagtgtaattgataaaacgtgttgtttatgttggtgtgattggcaatagGTGCCTACAAGTATGTTTCAGAGCTATGGCGCAAGAAGCAGTCTGATGTCATGCGCTTCTTGCAGCGGGTGAGGTGCTGGGAGTATAGGCAGCAACCTTC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G17390.1 (Arabidopsis thaliana), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttt-tgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                  | | ||| | | | || || || ||     ||  ||||  | | |||     ||||    || ||  ||  ||     |    | |  ||||| |       | ||||||||||||| ||| |   |||||| ||||||||||||||||| |||||| || | ||  | | | | ||  | || ||||||||  | ||||  ||   
-----------------------------------------------------------------gtatgtttctcactattatctctctctcagatgtcgtttctgtattgttcattagatt---ctagaagttaattaaggatgaaatgtgatttttga------ttacagGTGCGTACAAATACGTGTCGGAGCTATGGAGGAAGAAGCAGTCGGATGTGATGAGGTTTCTTCAGAGGGTTAGGTGTTGGGAGTATCGCCAGCAGCCTTC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EDP06755 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgc-agtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG-----------
                                                                                      |  |   |   ||  |    | ||  |   |     |   | |   || | |    ||       |  |   |    ||||||       || |   |||||| |||||||||||| | |||||||||   |||||||| || ||| |||||||||||||||||||||||||| | ||| | ||| |           
-----------------------------------------------------------------------------------gtgcgatagctcaaagcctcataccagcatctgcagccgccggccgacattctctgaacttacgcgactggtcgctc---tttccttggaccccgca---gTACATTGAGGAGCTGTGGCGCAAGAAGCAGAGCGATGTGCTCCGCTTCCTGCTGCGTGTGCGCTGCTGGGAGTACCGCCAGATGCCCAGCTGCGTGCGCC

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ27946 (Selaginella moellendorffii), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                                               | ||   ||| |  |  | ||  |  ||  |      ||| | |      |  |    ||  ||    |  |||||||||| |||||||||||||||||||| ||| |||||||||| || |||||| |||| ||| || |||| || ||||||||||||||  | |||||||||||
----------------------------------------------------------------------------------------------gtaagcactgctcgatcagctcaggcgctcgca-----tttctctcgcggctgatcgcattccttcctctctctccagGTGCCTACAAGTACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

upper sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ36722 (Selaginella moellendorffii), 3'ss of exon 1
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
                                                                                               | ||  |||| |  |  | ||  |  ||  |      ||| | |      |  |    ||  ||    |  |||||||||| ||||| |||||||||||||| ||| |||||||||| || |||||| |||| ||| || |||| || ||||||||||||||  | |||||||||||
----------------------------------------------------------------------------------------------gtaagcgttgctcgatcagctcaggcgctcgca-----tttctctcgcggctgatcgcattccttcctctctctccagGTGCCTACAAATACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

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|67716632|gb|BJ966892.1|BJ966892
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67723959|gb|BJ974218.1|BJ974218
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|7147834|gb|AW509756.1|AW509756
EST:     TCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|15729871|gb|BI741529.1|BI741529
EST:     CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|19790006|gb|BQ041638.1|BQ041638
EST:     CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|6167181|gb|AW145445.1|AW145445
EST:     GCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67725985|gb|BJ976244.1|BJ976244
EST:     CGCAGACGCGGCTNTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67716681|gb|BJ966941.1|BJ966941
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|19789278|gb|BQ041210.1|BQ041210
EST:     TCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|7148070|gb|AW509992.1|AW509992
EST:     GCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67702132|gb|BJ962365.1|BJ962365
EST:     CATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18324928|gb|BJ156923.1|BJ156923
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67724568|gb|BJ974827.1|BJ974827
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18326722|gb|BJ158721.1|BJ158721
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|208350163|gb|DC926118.1|DC926118
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162265202|gb|FC441289.1|FC441289
EST:     CATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18329917|gb|BJ161923.1|BJ161923
EST:     TCACCATAGCCCCGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162204518|gb|FC380810.1|FC380810
EST:     CGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18339110|gb|BJ171136.1|BJ171136
EST:     CTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162274720|gb|FC450487.1|FC450487
EST:     CGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67723877|gb|BJ974136.1|BJ974136
EST:     CGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162262914|gb|FC438774.1|FC438774
EST:     ACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: ACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67710289|gb|BJ965952.1|BJ965952
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67709674|gb|BJ965490.1|BJ965490
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67723750|gb|BJ974009.1|BJ974009
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67720626|gb|BJ970885.1|BJ970885
EST:     CGCAGACGCGGNTNTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67709801|gb|BJ965617.1|BJ965617
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162267259|gb|FC442671.1|FC442671
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGCACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67717468|gb|BJ967727.1|BJ967727
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|208396192|gb|DC923986.1|DC923986
EST:     TCACCATAGCCACGCTCTNTCGCAGACGCGGCTNTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|100398906|gb|BY990575.1|BY990575
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67712861|gb|BJ966310.1|BJ966310
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162223159|gb|FC398789.1|FC398789
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67724214|gb|BJ974473.1|BJ974473
EST:     TCGCAGACGCGGNTNTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67709881|gb|BJ965697.1|BJ965697
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|6227523|gb|AW156122.1|AW156122
EST:     CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67720619|gb|BJ970878.1|BJ970878
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67709625|gb|BJ965441.1|BJ965441
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18363752|gb|BJ195824.1|BJ195824
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|208353095|gb|DC910146.1|DC910146
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67702125|gb|BJ962358.1|BJ962358
EST:     CACCATAGCCACGCGTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: CACCATAGCCACGC-TCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67725202|gb|BJ975461.1|BJ975461
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162227057|gb|FC402258.1|FC402258
EST:     GCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|19782582|gb|BQ039872.1|BQ039872
EST:     TAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|7067172|gb|AW497027.1|AW497027
EST:     ATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: ATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67725152|gb|BJ975411.1|BJ975411
EST:     TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGG                         GTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC
genomic: TCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGC

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: 34 (upstream exon), 35 (downstream exon)
Score: 105

AATGTGGCAGCATTTCGCTTGGGGAGGCCCTTTTCTACTCTTCATCACCATAGCCACGCTCTCTCGCAGACGCGGCTCTTCTCTCTCACCATGGgtattcattc ... tttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG
  atctaac  putative branch site (score: 105)
              tttttttttttttttt  putative PPT
         tggagttttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcgagatctaactggagttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC