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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG

Basic information

species Physcomitrella patens
transcript PP1S7_364V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttcc-----ccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
          ||  | |     |   || | ||   |||  |           || |  || |    | | || ||    |   |  ||| | | |      |||| |||||||||||| |   |||||||||| ||| ||||||||| |||||| || | ||| |||  || |||||||||||||||||| | || |  || | 
----------gtgagctcctcctcctcc-tccgcctgttcctcgtcgacctccccctacatctctcctctcttctgatgcgcccggtttttgctgcgaggtgcagGGGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 1
----------gctttg-tgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggt-tccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
           ||  |  |  |  |       |    |   ||    |||    ||        |  |  || |      |  |  ||  |  ||   |||| | | | |||| |||||||||||| |   |||||||||| ||| ||||||||| |||||| || | ||| |||  || ||||| |||||||||||||| || |  || | 
gtgagctcctcctccgacgccgcctccctccatcactctcgtctccagtttcccacccctccacc--tccatctctctcctgatccgtcctccgtcgttttgctgtgcacagGTGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G034794_T02 (Zea mays), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttg-----gttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
               ||  | |   |  |||    | |    | |       | ||     || ||  ||    |||   || | | ||||     ||  | |||| |||||||||||| |   |||||||||||||| |||||||||||| ||| |||| ||| |||  || |||||||||||||||||||| || |  || | 
---------------gtgagctctcgt-atttaccgctgatggcctctccgattcgcatgcgtgggtcttaccgtgtgtcgtatcattttgtcgctgtggcacagGTGCGTACAAGTACGTCTCGGAGCTATGGCGGAGGAAGCAGTCCGATGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G024354_T01 (Zea mays), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
               ||  |     |   |  | |   |     |  | ||  |  |    || |  | | | |  || | |||     | ||  | |||| |||||||||||| |   ||| |||||| ||| ||||||||| |||||| |||| ||| |||  || |||||||||||||||||||| || |  ||   
---------------gtgagcaaatgttctgtggtctctccgtgcaggcgaacctttgcgcgtcgtctctctctgatagtctgt-----tcgtcgcgcagGGGCGTACAAGTACGTGTCGGAACTATGGAGGAGGAAGCAGTCGGACGTGATGCGCTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGTC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
              |  ||   | ||| |   |   ||    ||   |   |   |    | |  ||| | ||   |  | | |   | |||   | |||| |||||||||||  |   |||| ||||| ||| |||||| ||||||||| |||| ||| |||  || |||||||||||||||||||| || |  || | 
--------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtgg---cgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EDP06755 (Chlamydomonas reinhardtii), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG-----------
          ||  | |||      |||        |    ||  |     | |||  | | |  |   ||    |  |   ||   | |  ||||   | | |   || ||||||||||||||| ||||| |||||||||  ||| ||||| || ||| |||| ||||||||||||||||||||| | ||  | ||| |           
----------gtgcgatagctcaaagcctcataccagcatctgcagccgccggccgacattctctgaacttac--gcgactggtcgctct--ttccttggaccc-cgca-gTACATTGAGGAGCTGTGGCGCAAGAAGCAGAGCGATGTGCTCCGCTTCCTGCTGCGTGTGCGCTGCTGGGAGTACCGCCAGATGCCCAGCTGCGTGCGCC

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ27946 (Selaginella moellendorffii), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
                    ||  |  || |    | |  |   |  | |    | ||  | | | |  |  |  | | |   |     |   || ||||| || ||||||||||| ||||||||||||||||||||||| ||||| ||| |||| ||| || | || || ||||||||||||||  | || || |||||
--------------------gtaag--cactgctcgatcagct-caggcgctcgcatttctctcgcggctgatc-gcattcctt---cctctctctccagGTGCCTACAAGTACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

upper sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ36722 (Selaginella moellendorffii), 3'ss of exon 1
gctttgtgttgtttggtagggttgggccattcgatggttggtga-cgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
                            |  || || | | | | |    | |  ||   || |          |  |    |       |   || ||||| || ||||| ||||| ||||||||||||||||||||||| ||||| ||| |||| ||| || | || || ||||||||||||||  | || || |||||
--------------------------gtaagcgttgctcgatcagctcaggcgctcgc--atttctctcgcggctgatcgcattccttcctctctctccagGTGCCTACAAATACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

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|67508420|gb|BJ941287.1|BJ941287
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162271595|gb|FC447480.1|FC447480
EST:     CCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18359423|gb|BJ191484.1|BJ191484
EST:     AATTTTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: AATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162220891|gb|FC395868.1|FC395868
EST:     TCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162240732|gb|FC417455.1|FC417455
EST:     CGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18348919|gb|BJ180968.1|BJ180968
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18366229|gb|BJ198307.1|BJ198307
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162271594|gb|FC447479.1|FC447479
EST:     CATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67573930|gb|BJ946754.1|BJ946754
EST:     TTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67703128|gb|BJ963361.1|BJ963361
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67716916|gb|BJ967175.1|BJ967175
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCGGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162220892|gb|FC395869.1|FC395869
EST:     GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|100421478|gb|BY976206.1|BY976206
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|208358654|gb|DC942904.1|DC942904
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCAGGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67697318|gb|BJ957551.1|BJ957551
EST:     TTTGNTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162230110|gb|FC406258.1|FC406258
EST:     GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162236265|gb|FC411189.1|FC411189
EST:     CTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|208369432|gb|DC955893.1|DC955893
EST:     GCTCCACTGCCAATTTTGNTGCGCATCGCATCGTCCCTCCATCAGGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67725434|gb|BJ975693.1|BJ975693
EST:     ACTGCCAATTTTGNTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCGGTCCGACGTGC
genomic: ACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67703454|gb|BJ963687.1|BJ963687
EST:     AATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: AATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18363436|gb|BJ195508.1|BJ195508
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162274512|gb|FC450955.1|FC450955
EST:     CTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67709343|gb|BJ965159.1|BJ965159
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAANAAGCAGTCCNACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18349129|gb|BJ181178.1|BJ181178
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACNAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162263395|gb|FC438618.1|FC438618
EST:     CCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|37852832|gb|BJ610840.1|BJ610840
EST:     GCATCGCATCGTCCCNTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCATCGCATCGTCCC-TCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18369416|gb|BJ201503.1|BJ201503
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162230109|gb|FC406257.1|FC406257
EST:     CCAATTTTGCTGCGCATCGCATCGT-CCTCCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTG
genomic: CCAATTCTGCTGCGCATCGCATCGTCCCT-CCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTG
EST: gi|67709432|gb|BJ965248.1|BJ965248
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGTAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67575790|gb|BJ948614.1|BJ948614
EST:     ATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: ATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162242389|gb|FC416132.1|FC416132
EST:     TGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162275095|gb|FC450954.1|FC450954
EST:     CATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162276408|gb|FC452138.1|FC452138
EST:     CTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162263381|gb|FC438617.1|FC438617
EST:     GCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|19789326|gb|BQ041241.1|BQ041241
EST:     CCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162224241|gb|FC400124.1|FC400124
EST:     CACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|67709479|gb|BJ965295.1|BJ965295
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGTAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|162212099|gb|FC388209.1|FC388209
EST:     GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: GCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|18342188|gb|BJ174223.1|BJ174223
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|37836096|gb|BJ594104.1|BJ594104
EST:     TTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTG
genomic: TTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCAT-CATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTG
EST: gi|67717277|gb|BJ967536.1|BJ967536
EST:     TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCGGTCCGACGTGC
genomic: TTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
EST: gi|37835885|gb|BJ593897.1|BJ593897
EST:     CTCCATCATGG                         GCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC
genomic: CTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGC

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: 17

TCCTCTTTGGGTTTGCTCCACTGCCAATTCTGCTGCGCATCGCATCGTCCCTCCATCATGGgtacctgctt ... ggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG
         cgttaat  putative branch site (score: 17)
                                               ttcccc  putative PPT
                      ttttttttgtaatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT