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

gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG

Basic information

species Physcomitrella patens
transcript PP1S215_71V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os07g07719.1 (Oryza sativa), 3'ss of exon 2
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                             | | ||   ||    | ||   || ||    | |  |||||||| | |   | |  |   | ||||  |||  ||    |||   |   |   ||  |  || |||||||||||||||||| ||||||||||||||  | || || |||||||| ||||| ||||| |||||  |  | |||| ||| |||||||| || ||||||
-------------------------------------------------------cgaggctttggactgct---aactt---ctttgggctaattaattgcatt-ctcagagttgaacaaattgctctttgattt----catt-tgaactaccttttgtaattcagGAACCACCGTGGTCTCCGTCACTACTGGGGTCTCCGTGTCCGTGGTCAGCACACCAAGACTACTGGCAGGAGGGGAAAGACTGTCGGTGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os07g07770.1 (Oryza sativa), 3'ss of exon 2
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                                  |    |||| |||   ||  |  | ||    |||||  |  |  |   |||   |      ||||   |    ||    |   |   ||||    || |||||||||||||||||| ||||||||||||||  | || || |||||||| ||||| ||||| |||||  |  | |||| ||| |||||||| || ||||||
-------------------------------------------------------------cgagtactttttgt-attctcacagttgaacaa---attgcgctttgatttcatttgaactactacgattaattgtaatcgaaccatatctttttgta--attcagGAACCACCGTGGTCTCCGTCACTACTGGGGTCTCCGTGTCCGTGGTCAGCACACCAAGACTACTGGCAGGAGGGGAAAGACTGTCGGTGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os07g07709.1 (Oryza sativa), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattg-cgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                                   |  |||     ||   |     |   ||  |||  | |    ||  |||  | | |     |  |   |||  ||   ||  ||   ||| |   ||||||||||||||||||||| ||||||||||||||  | || || || ||||| ||||| ||||| |||||  |  | |||| ||| |||||||| || ||||||
-----------------------------------------------------------------tgtttctttcagcttactcccaataat-ctagattataataatcccaagctgaaagaaacatggcctaagttgaatcg-aactactccattttgta-atgcagGAACCACCGTGGTCTCCGTCACTACTGGGGTCTCCGTGTCCGCGGTCAGCACACCAAGACTACTGGCAGGAGGGGAAAGACTGTCGGTGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os03g58050.1 (Oryza sativa), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                               ||| | |   ||   ||  ||||  |   ||| || |  |  | |      ||   |||  ||    |||| ||    || ||  || |       |    |||| |    |   | ||||||||||||||||||  | |||||||||||| | || || ||||| || ||||| |||||||| ||| |  | || | ||| ||||||||||| ||||||
----------------------------------------------gtttgt-tacccaggcattcatcatgt---attggatccctttaac------ttatgttg-accatcttttacgct---ctcatcaccct----tgcgctcacttgttccttg---tacagGAACCACCGTGGTCTGAGGCACTACTGGGGCCTCCGTGTGCGTGGGCAGCACACCAAGACAACCGGAAGGAGGGGTAAGACTGTCGGTGTGTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G130544_T02 (Zea mays), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                               |  ||         | |  ||| | ||    |  || | |     | ||   |||     |  |  | |||  |            ||  ||||     |||||||||||||||||||| ||||||||||||||| | || || ||||| || ||||| ||||| |||||  | ||||||| |||||| ||||| || ||||||
--------------------------------------------------------------gtccattgtgcactgtctacactctacattcttgcatcg-agaatacatgatctta--ttatcgtagtagcccagaccttcagatttttaatttgttc--tgcagGAACCACCGTGGTCTGCGTCACTACTGGGGCCTCCGCGTCCGTGGCCAGCACACCAAGACTACTGGTAGGCGTGGAAAGACCGTTGGTGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G178341_T02 (Zea mays), 3'ss of exon 2
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                   ||          |  |  | ||   ||||    ||||| |||    ||||  ||  |     | | ||  |    | |     | |  || |     |||||||||       |||||||||||||||||| ||||||||||||||| | || || ||||| || ||||| ||||| |||||  | || ||||  || || ||||| || ||||||
---------------------------------------------------tagccgtggccttcaa--attttaaatttttg-tatgctgcatgtcattgt-ttatgtagttcctaagttaacagtcacatattcgcatctt-----cttggtttg-------cagGAACCACCGTGGTCTGCGTCACTACTGGGGCCTCCGTGTCCGTGGCCAGCACACCAAGACCACTGGCAGGCGCGGAAAAACTGTTGGTGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G062911_T01 (Zea mays), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                     ||| ||  | |       | || | |   | ||||||   |||       ||||    || ||   | |||  || ||    || | ||      ||||  ||     || |||||||||||| ||||| |||||||||| |||| |||| || | ||| || ||||| ||||| |||||| | ||||||| ||| || |||||||| ||||||
-----------------------------------------------------ttttcatttgtg-----ttcgtaactgtta-tatgcacttctcccaaaatttgcttgcggttt---gtagttgtgttttgtatgcgacacagaaccttgtgtt-----atccagGAACCACCGAGGTCTCCGTCACTACTAGGGCCTGCGTGTCCATGGCCAGCACACCAAGACTACTGGAAGGCGTGGAAAGACTGTTGGTGTGTCAAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA10G36610.2 (Glycine max), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                      ||   |||| | |||  |  ||   | ||  ||   | |      |||||||    ||   ||    |    ||  |  |  |       |  |  |  ||      |||||| |||||||||||| |  | || ||||||||| | || || |||||||| ||||| ||||| ||||| ||| | |||| ||| || ||||| |||||||||
------------------------------------------------------ttgttaata-aaatccttgttgccctcaagcattgtgta------tgcattgt--ttga--ttgaaaaacattggctaac--gaactgaaattgtatccttactattatgcagAAACCACCGTGGTTTGAGGCATTACTGGGGCCTTCGTGTCCGTGGTCAGCACACCAAGACTACTGGCCGTAGGGGAAAGACTGTTGGTGTCTCTAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv05s0020g03450.t01 (Vitis vinifera), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                   |  |    |  || |   ||||   ||||  |||    |         || ||  |  |||  | || |  ||| |    ||  |   | |    |   |  |||        ||||||||||||||||||||| |||||||||||  | || ||||| || |||||||| ||||||||||| ||  | || |  || || ||||| || || |||
---------------------------------------------------tgctcgtgagcattgcctactt---attttcactgcata---------tgtatc-catctgtttataagaggtgataggggcagt---taacactgatatcattttcaatggacagGAACCACCGTGGTCTTCGACACTACTGGGGTCTACGTGTACGCGGACAACACACCAAGACAACTGGCCGCAGAGGGAAAACTGTTGGTGTCTCAAAAAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv18s0072g00060.t01 (Vitis vinifera), 3'ss of exon 4
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                           |    |         |  ||||   ||    |   |  ||    ||  | || | |   || |    ||||    |    | ||   |     |||      |||||||||||||||||||||  | |||||||||||| | || || || || || ||||| ||||| || || ||| | |||| ||| || ||||| |||||||||
-----------------------------------------------------------agggcaccgtgtccattgtttgtggtagtaggttgtgaatgaagtttaggctaggt--ggggaaacatgatactttcagctaatcttgatactgtt------atgcagGAACCACCGTGGTCTGAGGCACTACTGGGGCCTCCGTGTTCGCGGCCAGCACACCAAGACCACAGGTCGTAGAGGAAAGACTGTTGGTGTCTCTAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ22352 (Selaginella moellendorffii), 3'ss of exon 3
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                                                          |||  |  ||         |   || | ||   ||  ||| |  |    || | |  | |||            |||||||||||||||||||||||||||||||||  |||| || || || || ||||| ||||| || ||||| |||||||| ||||| || || || ||||||
------------------------------------------------------------------------------------------gcaagccgtttttccctttcaatctcttggggatg--gatggattgacttctttattgtttga-----------cagGAACCACCGTGGTCTTCGTCACTACTGGGGTCTGCGCGTCCGCGGGCAGCACACCAAGACCACCGGACGCCGTGGAAGAACCGTGGGAGTCTCCAAGAAG

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ25542 (Selaginella moellendorffii), 3'ss of exon 4
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgc------agGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
                                                                      ||   |      ||   |     ||| |    ||   ||  | | ||      |    ||   |||  |    || || |||  ||| ||    |      ||| ||||||||||||||||||||||||||||  |||| || || || || ||||| ||||| || | ||| |||||||| ||||| || || || ||||| 
----------------------------------------------------------------------ctcagggac--gacctcgagaggctcaagaagatcaggcaagccattttttcctttcaatc-tcttacggatggatggattgacttgaggttatcttccttagGGACCACCGTGGTCTTCGTCACTACTGGGGTCTGCGCGTCCGCGGGCAGCACACCAAGACCACCGAACGCCGTGGAAGAACCGTGGGAGTCTCCAAGAAA

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|18360229|gb|BJ192291.1|BJ192291
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|19777657|gb|BQ039210.1|BQ039210
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208386167|gb|DC949078.1|DC949078
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18341741|gb|BJ173776.1|BJ173776
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208357154|gb|DC926529.1|DC926529
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18332399|gb|BJ164412.1|BJ164412
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37842872|gb|BJ600880.1|BJ600880
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37852794|gb|BJ610802.1|BJ610802
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208344396|gb|DC912755.1|DC912755
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|67727082|gb|BJ977341.1|BJ977341
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTANCGTGGTCAAC
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTA-CGTGGTCAAC
EST: gi|162262789|gb|FC439039.1|FC439039
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162219637|gb|FC395633.1|FC395633
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18344316|gb|BJ176356.1|BJ176356
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162225276|gb|FC402042.1|FC402042
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18368996|gb|BJ201081.1|BJ201081
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18359385|gb|BJ191446.1|BJ191446
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAAC
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACC-GTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAAC
EST: gi|208361710|gb|DC934950.1|DC934950
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37853594|gb|BJ611602.1|BJ611602
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37823511|gb|BJ581577.1|BJ581577
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162240837|gb|FC417508.1|FC417508
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|67699275|gb|BJ959508.1|BJ959508
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37850282|gb|BJ608290.1|BJ608290
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208392628|gb|DC933986.1|DC933986
EST:     GCCTTGGACGTGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162237025|gb|FC413184.1|FC413184
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|7286711|gb|AW599198.1|AW599198
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162240836|gb|FC417507.1|FC417507
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162213507|gb|FC389379.1|FC389379
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18369441|gb|BJ201528.1|BJ201528
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162225277|gb|FC402043.1|FC402043
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162219636|gb|FC395632.1|FC395632
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208356836|gb|DC926847.1|DC926847
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|37850750|gb|BJ608758.1|BJ608758
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|67722194|gb|BJ972453.1|BJ972453
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACCGTGGTCAAC
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTAC-GTGGTCAAC
EST: gi|162264508|gb|FC440843.1|FC440843
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208370042|gb|DC948123.1|DC948123
EST:     GCCTTGGACGTGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162246356|gb|FC422414.1|FC422414
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|67724116|gb|BJ974375.1|BJ974375
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162213506|gb|FC389378.1|FC389378
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162229537|gb|FC405871.1|FC405871
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|208346845|gb|DC913084.1|DC913084
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|67720427|gb|BJ970686.1|BJ970686
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|18371917|gb|BJ203519.1|BJ203519
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
EST: gi|162237026|gb|FC413185.1|FC413185
EST:     GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAG                         GAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA
genomic: GCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACA

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: 208

ACAGGAAAAAAGACCACAAAGACGGTCGCTACTCCCAGGTTGTATCTAATGCCTTGGACATGAAGCTCAGGGATGACCTTGAGCGTCTGAAGAAGATCAGgttagtgaaa ... ggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG
           tgctgat  putative branch site (score: 208)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgaaattttcttcttccagtttatgattaatgcttattcaaatttatatttacaaatatagatcacttgtgatttgaactatgcagcactctattgcattgcgcctggctttaggcagtgctgattgccttgtgtcatgacggcttggtttgggggatgcagGAACCACCGTGGTCTTCGTCACTACTGGGGCTTGCGAGTACGTGGTCAACACACGAAGACAACTGGACGTCGTGGAAGGACCGTCGGTGTGTCTAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG