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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG

Basic information

species Physcomitrella patens
transcript PP1S38_376V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os09g08430.1 (Oryza sativa), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                        ||    |||| | |   | |      ||| |  | ||||    || ||   || |  |||  |||  |    ||| |  |            ||||||||||||||||||| || |||||||||||||| ||||| || ||||||||||  |||||||||||||||
------------------------gtaagtttgtcaataccttt-----ttgtatgctctttgtagagttcggtgatgctttgtc-tcatgagcaaatgatact------------ttgcagCTTACATGTCCTCCCCGTGCCACATTGAGCTTATCCTGTCAGAGAAGGAAGAACCAGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os08g41810.1 (Oryza sativa), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttg---tcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                                   ||    | |   | | | | ||  ||     |||    |   |  ||  |  | ||||   |  ||     |||||||||||||||| || |||||| | ||||| ||| | || |||||||||| | | ||||||||||||
---------------------------------------------------gtaagttctcgaggatggatgttgatttatggttccatttgtagtttacttatattgcttttgtggc----cagCTTACATGTCCTCACCCTGCCACGTCGAGCTTATCTTGTCAGAGAAGGAAGAGGCCGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G702426_T01 (Zea mays), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                                  | ||||  |   |    ||   | | ||  | |         | || |    ||     |   ||  |||||||||||||||||| |||||||||||||||||||| || || |||||||||| ||| ||||||||||||
-------------------------------------------------gtatgtatcgaaggatg-gtctttcattcttgcgacactgttgaatggtatatttaatgttgctgttctgcagCTTACATGTCCTCCCCTTGCCACATTGAGCTGATTCTGTCAGAGAAGGAAGAGCCTGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G148744_T02 (Zea mays), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatg-gtgttgcccattgg-gtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                         || | | | | |  |||| | | ||   |      |   ||       || | |  |   | ||     |||  ||  |||||| ||||||||||| ||||||||||||||||||||| | || |||||||||| ||| ||||||||||||
----------------------------------------gtacgtatcgtattgaatgatggccattcat-----tattgtaacagtgcagaatagtatatatttaattttgccgttctgcagCCTACATGTCCTCACCTTGCCACATTGAGCTGATCTTGTCAGAGAAGGAAGAGCCTGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G126594_T02 (Zea mays), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccat-tgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                |||| ||  | |       ||  ||  ||||  | |    ||||       |  |    |  | |   |  ||      |   || | |||||||||||||||| || |||||||| ||||| ||| | || ||||||||||  |||||||||||||||
--------------------------------gtaagtctatctaactaaagttgaagttttgctatgcg-atgaactgttcttcatttggagcttaacattctgtttgcctacctggtccagCTTACATGTCCTCCCCATGCCACATAGAGCTCATCTTGTCGGAGAAGGAAGAACCAGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G119169_T04 (Zea mays), 3'ss of exon 4
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                |||| ||  | || |       | | ||| |  | |    ||||     |  | |    |  | | | |  | || |   ||||   |||||||||||||||| || |||||||| || || ||| | || |||||||||| ||| ||||||||||||
--------------------------------gtaagtcagtctgaagt-----tgaagttcgctatgc-tatgaacaggttactatttgcagcttaagatcctacctacctggtg---cagCTTACATGTCCTCCCCGTGCCACATCGAACTCATCTTGTCAGAGAAGGAAGAGCCCGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G119169_T01 (Zea mays), 3'ss of exon 6
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                |||| ||  | || |       | | ||| |  | |    ||||     |  | |    |  | | | |  | || |   ||||   |||||||||||||||| || |||||||| || || ||| | || |||||||||| ||| ||||        
--------------------------------gtaagtcagtctgaagt-----tgaagttcgctatgc-tatgaacagGTTACTATTTGCAGCTTAAGATCCTACCTACCTGGTG---CAGCTTACATGTCCTCCCCGTGCCACATCGAACTCATCTTGTCAGAGAAGGAAGAGCCCGTGA--------

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA11G37160.1 (Glycine max), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                    |  || |  ||   ||| | || ||    || ||  || |   | | ||  ||    ||  | | |     | ||   | |||||||||||||||| ||||| |||||||||||||||||  | ||||||||||||| ||| ||||||||||||
-----------------------------------gtatgtcactgattttgt-tgatattgtcgactta-atggactac-tatta-catgcttttgttgagagagtcctttttttttgcagCTTACATGTCATCTCCATGCCACATTGAGCTGATATTGTCTGAGAAGGAAGAGCCTGTGAAGAAAGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA18G01110.1 (Glycine max), 3'ss of exon 5
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                                         ||||   |  || |  |   |  |||  || | |||    |  | | ||  | | ||| ||        |   | |||||||||||||||| ||||| |||||||||||||||||  | ||||||||||||| ||| |||||||| |||
----------------------------------------gtatgtcgctggttttgttgctatcactgactt-aatggattactattacttacttatgttgagagtgtcttttttttgcagCTTACATGTCATCTCCATGCCACATTGAGCTGATATTATCTGAGAAGGAAGAGCCGGTGAAGAAGGAG

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ21308 (Selaginella moellendorffii), 3'ss of exon 4
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
||||||||  |     ||||| |  |  | | | |  |   |  ||   || |||  |     ||    | ||     || ||      | || ||||  | |            | | |||   |  || |  || || |  || |      || | |||||  | ||                     
gtaagtggtgaagttcttcct-cgttgatctagaagctgactgcggtggctttgtgcttggcagCCTACATGTCCTCTCCTTGCCACATCGAAGTGATCCTCTCAGA-GCACATCGCTCCAGTCAAGGTGACA-CTACTCGAAACCTC---TCGAGCTTTTCTTTGTAG---------------------

upper sequence: PP1S38_376V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ26852 (Selaginella moellendorffii), 3'ss of exon 4
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgtt--gcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG--------------------------------
                                                               | | ||  |||||| |  |           ||   ||  |    | ||  ||| |  ||||||||||||||||||||||||||||| ||  ||||||| || ||| |    || ||||| |||                                      
---------------------------------------------------------------gtaagtg-gtgaattctattcctctttggcttagaggcttacatcgttttgtgcttggcagCTTACATGTCCTCTCCTTGCCACATCGAAGTGATCCTCTCAGAGCACATCGCTCCAGTCAAGGTGACACTACTCGAAACCTCTCGAGCTTTTCTTCGTAG

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|37823698|gb|BJ581764.1|BJ581764
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37832499|gb|BJ590511.1|BJ590511
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162203216|gb|FC379313.1|FC379313
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37849607|gb|BJ607615.1|BJ607615
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|7067215|gb|AW497070.1|AW497070
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCTTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162248381|gb|FC420906.1|FC420906
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18370115|gb|BJ201717.1|BJ201717
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTG
EST: gi|37841187|gb|BJ599195.1|BJ599195
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162202837|gb|FC379819.1|FC379819
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162237079|gb|FC413238.1|FC413238
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18368504|gb|BJ200589.1|BJ200589
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37850940|gb|BJ608948.1|BJ608948
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|67693770|gb|BJ954003.1|BJ954003
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162251657|gb|FC426063.1|FC426063
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162276406|gb|FC452656.1|FC452656
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162271900|gb|FC448110.1|FC448110
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162237080|gb|FC413239.1|FC413239
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|7286822|gb|AW599309.1|AW599309
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162213580|gb|FC389452.1|FC389452
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37848210|gb|BJ606218.1|BJ606218
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162177226|gb|FC352655.1|FC352655
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18344500|gb|BJ176540.1|BJ176540
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAG
EST: gi|162202838|gb|FC379820.1|FC379820
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162248380|gb|FC420905.1|FC420905
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162217445|gb|FC393121.1|FC393121
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162177227|gb|FC352656.1|FC352656
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18364022|gb|BJ196095.1|BJ196095
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|7207253|gb|AW561256.1|AW561256
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18360355|gb|BJ192417.1|BJ192417
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162163828|gb|FC340362.1|FC340362
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTTTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162272416|gb|FC449055.1|FC449055
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162196966|gb|FC373332.1|FC373332
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162203215|gb|FC379312.1|FC379312
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTTTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37851774|gb|BJ609782.1|BJ609782
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162217446|gb|FC393122.1|FC393122
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162269116|gb|FC444984.1|FC444984
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162271899|gb|FC448109.1|FC448109
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGAGGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|67570487|gb|BJ943311.1|BJ943311
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|18355556|gb|BJ187615.1|BJ187615
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|37838498|gb|BJ596506.1|BJ596506
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162251656|gb|FC426062.1|FC426062
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
EST: gi|162262697|gb|FC438479.1|FC438479
EST:     GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACC                         CTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG
genomic: GGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAG

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: 35 (upstream exon), 35 (downstream exon)
Score: 81

AAGGGTCTTGATGTAGACACTCTCGTAGTCTCTCACATTCAAGTTAACCAGGCGCAGAAGCAGCGCAGACGTACTTACCGTGCCCACGGACGTATCAACCgtaagtggct ... ggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG
                        aattgat  putative branch site (score: 81)
                       aaattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtggctactccattcctactgttgtgttgtaattcgttatggaacctgtgtaatgtttggcacgtacgtgaatcccgtgttgtcacaaattgatggtgttgcccattgggtgttgcagCTTACATGTCCTCTCCTTGCCACATTGAGCTGATCCTTTCTGAGAAGGAAGCGCCAGTGAAGAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA