Skip to another splice site:
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 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttttgtcttccccttatggaatttggttatcctgttagcgtgctttacaacgctgaagaaatctctctgactaattagtgttctcctgtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG

Basic information

species Physcomitrella patens
transcript PP1S45_88V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S45_88V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G177720_T01 (Zea mays), 3'ss of exon 1
tgtttttgtcttccccttatggaatttggttatcctgttagcgtgctttacaacgctgaagaaatctctctgactaattagtgttctcctgtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG
       ||   |      | ||  ||   |  ||||||    ||  |  | |  | || || || ||  |||  | |  ||| | |  |||      ||| ||||||||||| || |||   || |||||||||||| | || |||||||| || || || || || ||| ||||||||||||| |||||||| || ||
-------gttagctagcactcgacctta--tgccctgtttcaatgact--ccattccgaggacatgtccatgatcatt--gtgctgttatgt------agGCTACATTGGAGAGTTCGAGTACGTTGATGACCACCGATCGGGCAAGATCGTGGTCGAACTCAACGGGAGGCTGAACAAGTGCGGCGTCATCAGCCCTCG

upper sequence: PP1S45_88V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT3G46040.1 (Arabidopsis thaliana), 3'ss of exon 2
tgtttttgtcttccccttatggaatttggttatcctgtt-agcgtgctttacaacgctgaagaaatctctctgactaattagtgttctcctgtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG
                    | |   | || |   ||   |||  || ||  |   ||| | | |  | ||      | |  || |     ||  ||||||| |||||||| || ||||||   || ||||||||| |  |||| ||||| || || ||||||||||| ||| |||||||||| || || |||||||| ||
--------------------gtatgctagtaactttgcagagctagcgtttgattcctgtatacagttttcaagtgtaatgatgcttcttggt--ttttagGTTACATTGGCGAGTTTGAGTATGTTGATGACCACAGGTCTGGTAAGATTGTTGTTGAGCTTAATGGAAGGCTGAACAAGTGTGGAGTTATCAGTCCTCG

upper sequence: PP1S45_88V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------tgtttttg---tcttccccttatggaatttggttatcctgtt---agcgtgctttacaac-gctgaagaaatctctctgactaattagtgttctc-ctgtctttt-----tagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG
                              | | || |   |||| |  || |    ||| | | |   | |   ||  ||  | | ||    | |   |   | | |||    | |   |  || ||| ||||       |||||| || || |||||||||   |||||||| ||| || | ||||| || || || ||||| ||||| |||||||||||||| |||||||| ||||| ||
gttagtgcatgtagcacctattttatttattctcttcgatttctttcgtttctactgttttgatgtgtcgattcaagtatgagtgaaaattaataatttatattgtttgatgtgtcaacatcatctctgcctttggcctgcagGATATATCGGTGAATTTGAGTATGTAGATGATCACAGATCAGGAAAAATTGTGGTTGAGCTGAATGGAAGGTTGAACAAGTGTGGTGTCATTAGTCCTCG

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|22132501|gb|BQ827193.1|BQ827193
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|19784412|gb|BQ040171.1|BQ040171
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|19789595|gb|BQ041399.1|BQ041399
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|7207482|gb|AW561483.1|AW561483
EST:     CCTCCAAGCGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCCCG                         TATACATTGGAGAATCTGAGCTGGTAGATGACC-CTCGAGCTGGAAAGATC
genomic: CCTCCAAG-GTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCAC-CGAGCTGGAAAGATC
EST: gi|162271135|gb|FC447150.1|FC447150
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162227556|gb|FC403498.1|FC403498
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162209152|gb|FC385371.1|FC385371
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67507539|gb|BJ940421.1|BJ940421
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162236677|gb|FC413772.1|FC413772
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162253265|gb|FC429201.1|FC429201
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|22133183|gb|BQ827593.1|BQ827593
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162227555|gb|FC403497.1|FC403497
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162276443|gb|FC452667.1|FC452667
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162231416|gb|FC406839.1|FC406839
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162253779|gb|FC429893.1|FC429893
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67695283|gb|BJ955516.1|BJ955516
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67569579|gb|BJ942403.1|BJ942403
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162231116|gb|FC406227.1|FC406227
EST:     CNCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: C-CTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162268680|gb|FC445177.1|FC445177
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67576849|gb|BJ949673.1|BJ949673
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67692847|gb|BJ953080.1|BJ953080
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162231115|gb|FC406226.1|FC406226
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67578807|gb|BJ950974.1|BJ950974
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|6102499|gb|AW126969.1|AW126969
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162253264|gb|FC429200.1|FC429200
EST:     CCCTTCCTCCAAGGTGGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|22492164|gb|BU052087.1|BU052087
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162271134|gb|FC447149.1|FC447149
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|67571916|gb|BJ944740.1|BJ944740
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162268679|gb|FC445176.1|FC445176
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162264626|gb|FC441208.1|FC441208
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|208350412|gb|DC906114.1|DC906114
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162264625|gb|FC441207.1|FC441207
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|208395465|gb|DC919999.1|DC919999
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162219274|gb|FC395270.1|FC395270
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162253778|gb|FC429892.1|FC429892
EST:     CCCTTCCTCCAAGGTGGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|19783429|gb|BQ040007.1|BQ040007
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|22492548|gb|BU052471.1|BU052471
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|37848235|gb|BJ606243.1|BJ606243
EST:     CCCTTCCTCCAAGGTNGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|162276442|gb|FC452666.1|FC452666
EST:     CTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
EST: gi|22131806|gb|BQ826816.1|BQ826816
EST:     CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACG                         GATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG
genomic: CCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCG

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), 34 (downstream exon)
Score: 43

AAGAACATGTTCAACGCGGAGAAGCGGGGGAAGCGTCAAGTGCTCATCCGCCCTTCCTCCAAGGTCGTCATCAAGTTTTTGTCCGTGATGCAGAAGCACGgtgtgtattt ... gtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttacaacgctgaagaaatctctctgactaattagtgttctcctgtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG
                          gactaat  putative branch site (score: 43)
                                    tgttctcctgtctttt  putative PPT
                           actaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtttttgtcttccccttatggaatttggttatcctgttagcgtgctttacaacgctgaagaaatctctctgactaattagtgttctcctgtctttttagGATACATTGGAGAATTTGAGCTGGTAGATGACCACCGAGCTGGAAAGATCGTAGTGGAGCTTAATGGCAGGTTGAACAAGTGCGGTGTCATCAGTCCCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT