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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT

Basic information

species Physcomitrella patens
transcript PP1S115_101V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os07g10720.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------------acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
                                                 |||||||| ||| | |  || | |||     |     ||    |  | | |  |  |  | |    ||     |  | |   |  | | || |  ||||||||| ||||||||  | || || ||||| ||||| ||||||||||| || || ||| | |||||||| ||||| ||||| || || || || ||||   
gttagttcacaaaatcgaaaccaccaacttgtcaagagacatcacttagcttaagtt-aca-tcgcctgagaaatacttcatcacttagcttcagttatttctgtgaaaatgccctctgactt--taactatgatatgttat--gtagTTTGGGTACATTGTCCTTACCACCTCTGCCGGAATCATGGACCACGAAGAAGCGAGGCGGAAGAACGTCGGAGGCAAGGTGCTCGGCTTTTTCTACTAGA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G018228_T02 (Zea mays), 3'ss of exon 2
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggta---tttggttcca-ttctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
              ||||   ||    |   |    |  ||    || || | |    |||   ||||   ||| | ||     |||   |||      |||||||||| ||||| ||  | ||||| |||||||||||||||||||| || |||||| |  | ||||| || || || |||||||| ||||||||||| ||| 
------------gttagtccaggctgctgtctctacaaaatctgattagagtttgtctgtacactttgaccccagtgctaactgtgcctctttgactggtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCCCGCCGTAAGAATGTTGGTGGCAAGGTTCTAGGTTTCTTTTATTGAA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G083497_T04 (Zea mays), 3'ss of exon 2
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgt-ttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
              |||  ||  |   |   ||    |   ||| ||      || |  | || |  ||  ||    || |    ||  |||| | |||||||||| || || ||  | ||||| ||||| ||||||||||| ||||| |||||| |  | |||||||| ||||| || || |||||||||||||| | ||
------------gttagcctgttgttgtctatatcatgggctgcatta----ttttgtatgttggactc--tttaagtggtaactgtgctcttatatgtagTTTGGCTATATCGTGCTTACAACCTCTGCGGGAATTATGGATCACGAGGAGGCCCGACGCAAGAACGTCGGAGGCAAAGTCCTTGGTTTCTTTTATTAAT

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 3
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgttt--cttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
      |||      | |  |  |  | |   |  |   |||    ||| || | |   |||      |  | ||     |||   |||  || || |||||||||| ||||| ||  | ||||| |||||||||||||||||||| || ||||| ||  | ||||| || || |  |||| ||| ||||||||||||||| 
------gttagtc-caatccgctgtctctataaaagctgattagagttgtctgt-acaatatgaaac-cagtgctaactgtgcctctttgactggtgtgtagTTTGGCTACATCGTCCTAACAACTTCTGCTGGAATTATGGACCATGAGGAGGCTAGCCGTAAGAATGTTGGTGCCAAGGCTCTAGGTTTCTTTTACTGAA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA11G00590.1 (Glycine max), 3'ss of exon 2
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttg----tttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
   |||  |  | ||  | |      | |  |      ||||  |||  |  | || ||| | |  |      |     |   | ||| ||        || ||||||| || ||||| |||||||| |||||||| || ||||| || || ||||| ||||||||||| || || || || ||  | |||||||| ||||   
---taacctatctgtgat-taaactttatgttgtccgttattctcttgtatgcatatggtttctcctgtttgcccctaaactttggttgctcaaaatgatgcagTTTGGGTATATTGTCTTGACAACCTCTGCTGGTATCATGGATCATGAAGAGGCTAGGAGAAAGAATGTTGGTGGTAAAGTGTTGGGTTTCTTCTACTAGG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA01G45060.1 (Glycine max), 3'ss of exon 3
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtat---ttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
   |||  |  | ||  | |      | |  |      ||||  |||   | | || ||| |    || || |          || | | |     |  | ||||||| || ||||| |||||||| |||||||| || ||||| || || ||||| ||||||||||| || || || || ||  | |||||||| ||||   
--ctaacctatctgtgat-taaactttatgttgtccgttattctcttgtgcgcatatggtttctcctgtttgcccctaaactttgattgctcaaaatgcgcagTTTGGTTATATTGTCTTGACAACCTCTGCTGGTATCATGGATCATGAAGAGGCTAGGAGAAAGAATGTTGGTGGTAAAGTGTTGGGTTTCTTCTACTAGG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA11G00600.2 (Glycine max), 3'ss of exon 3
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttg----tttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
   |||  |  | ||  |        ||  || |    ||||  |||  |  | || ||| | |  |      |     |   | ||| ||        || ||||||| || ||||| |||||||| |||||||| || ||||| || || ||||| ||||||||||| || || || || ||  | |||||||| ||||   
--ctaacctatctgtgatt--aaactttatgttgccgttattctcttgtatgcatatggtttctcctgtttgcccctaaactttggttgctcaaaatgatgcagTTTGGGTATATTGTCTTGACAACCTCTGCTGGTATCATGGATCATGAAGAGGCTAGGAGAAAGAATGTTGGTGGTAAAGTGTTGGGTTTCTTCTACTAGG

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT5G59850.1 (Arabidopsis thaliana), 3'ss of exon 3
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttg-actcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
   |   ||   |||  |||    | ||| ||  ||  | ||      | | |||||   ||||  ||    ||    ||| | || |   ||||  | ||||||| ||||||||| | || || || ||||| |||||||||||||| || |||||||||||||| || || || ||||||||||| |||||||||||| 
gtctgtcttttaagtcttgttcatattttggttctggttttttaaagagcaatctta---tattcagtgatcttacattga-gttcttaaattgt--gcagTTTGGGTACATTGTTCTTACGACCTCGGCTGGTATTATGGACCACGAAGAAGCCAGGAGAAAGAATGTTGGTGGCAAGGTTCTTGGCTTCTTTTACTGAA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT3G46040.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------acttaagttgacagtagtgtgggg-aatttcgtagtgagtattgcctttgactcttagggtat---ttggttccattctgctgatgctcgtttct-tgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
                                                               ||||  | ||    || | |||   ||||   |  | ||| |      |    ||||   |||   |   |   |         ||  |  |||| | | || ||||||| | ||||||| |||| || || || ||||| ||||| || || || || |||||||||||||| || || || |||||||| |||||||||||| 
gttagtctagagactatatagtagtggtaccaatcaatgttttagctattgatctgctgccttacttt-gctgttcctattatggtttaattggatgtttagtgtcattactttgccttactttatctttcaatgttacaacttcattgaacacttctctatgtgcagTTTGGTTTCATTGTTCTGACGACCTCAGCGGGAATCATGGATCATGAAGAAGCTAGGAGAAAGAACGTTGGTGGCAAAGTTCTTGGGTTCTTTTACTGAA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------------------acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
                                                                          | | |  |||      ||   |  |  |   ||||      |   ||| |  ||    |    ||||   | |    ||| |||  |   ||||  | ||||||| ||||| ||  |||| ||||||||||| ||||||||||| || || || || || ||||| || ||||| |||||||| || ||||| || ||| 
gttcgctcttcttataaactttctagttacagtggccttatgaattataagatcaagatttggaaatgtttttgaatcactttgcatactgtcccgaaacatcaatagtagtagctttgtttaatgctc---gctaatggtattaatggattgaagctattaaattgt--gcagTTTGGTTACATCGTGCTGACTACATCTGCTGGCATTATGGACCATGAAGAAGCTAGAAGGAAGAATGTTGGAGGCAAGGTTCTCGGCTTCTTCTATTGAA

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv08s0040g02460.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
                                           | | |  || | | |    | || ||  |   || |   | |   |   | |||| | ||||  | || | ||  | |||     |  |  | |||| |||||||||| ||||| |||||||| |||||||| || ||||| || || || || |||||||| || || || || || |||||||||||||||||||  |
gttggcatccaaaacccactattttttttataaaaaaaaaaaaaatgatcttaaaaatgaacttggcaaactgcaaggggccaatcatt---attctttgagtat--gatttc-ttggggtgactaatgagtgctatttgcagTTTGGATATATTGTCTTGACAACTTCTGCTGGCATCATGGATCATGAAGAAGCTAGGAGAAAAAATGTTGGTGGCAAAGTTCTTGGTTTCTTTTACTAGT

upper sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv13s0019g00530.t01 (Vitis vinifera), 3'ss of exon 4
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccatt------ctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
   ||  ||  | | |   | | | ||| |    |    ||| |||||| |    |   ||| ||||| ||||      |   ||||| | ||       ||| ||||||||||||||||  |||| || || ||||| || ||||| || || ||||| ||||||||||| || || || || || ||||||||||| ||||   
---tattttagctgcatactagtgtattacaggctag--atttcctttg-ccaacaatatatgtggtttcatttgatgacctttgatgatggtccaaaaattgcagTTTGGATACATTGTGCTGACTACTTCGGCTGGCATCATGGATCATGAGGAGGCTAGGAGAAAGAATGTTGGTGGCAAAGTGCTTGGTTTCTTCTACTAGG

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|162246238|gb|FC423622.1|FC423622
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67723358|gb|BJ973617.1|BJ973617
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162231477|gb|FC407927.1|FC407927
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162268342|gb|FC444111.1|FC444111
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTTGTTTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATTTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162273946|gb|FC450085.1|FC450085
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTTTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCCCGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|37830707|gb|BJ588719.1|BJ588719
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|18361569|gb|BJ193635.1|BJ193635
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67725053|gb|BJ975312.1|BJ975312
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162231476|gb|FC407926.1|FC407926
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67716536|gb|BJ966796.1|BJ966796
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162268343|gb|FC444112.1|FC444112
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162154867|gb|FC331909.1|FC331909
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162230932|gb|FC407187.1|FC407187
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|15728795|gb|BI740978.1|BI740978
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162273947|gb|FC450086.1|FC450086
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162246237|gb|FC423621.1|FC423621
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|37833938|gb|BJ591950.1|BJ591950
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162279012|gb|FC454751.1|FC454751
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|18341792|gb|BJ173827.1|BJ173827
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67709927|gb|BJ965743.1|BJ965743
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|7067334|gb|AW497189.1|AW497189
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|19784573|gb|BQ040203.1|BQ040203
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162276449|gb|FC452153.1|FC452153
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67728238|gb|BJ978497.1|BJ978497
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162250696|gb|FC426545.1|FC426545
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|18351354|gb|BJ183406.1|BJ183406
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67719980|gb|BJ970239.1|BJ970239
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67724883|gb|BJ975142.1|BJ975142
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162267764|gb|FC443754.1|FC443754
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67724006|gb|BJ974265.1|BJ974265
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162244134|gb|FC420942.1|FC420942
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162230933|gb|FC407188.1|FC407188
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|37839272|gb|BJ597280.1|BJ597280
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGNTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTNCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|18332455|gb|BJ164468.1|BJ164468
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|18352508|gb|BJ184562.1|BJ184562
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67709284|gb|BJ965100.1|BJ965100
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|162250756|gb|FC426605.1|FC426605
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
EST: gi|67716367|gb|BJ966627.1|BJ966627
EST:     GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAG                         TTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG
genomic: GAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAG

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), 34 (downstream exon)
Score: 78

GAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCGTTACAATGTAGGAGTTGGCGAGCTTGAAGCGTGGACTGCTCGTCTTCTCCCTTCTCGTCAGgtgagtgtta ... ttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT
                             tgctgat  putative branch site (score: 78)
                                     ctcgtttcttgttt  CT-rich tract
              tattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acttaagttgacagtagtgtggggaatttcgtagtgagtattgcctttgactcttagggtatttggttccattctgctgatgctcgtttcttgtttgtagTTTGGATACATTGTTTTGACAACATCTGCTGGAATTATGGACCACGACGAGGCCAGGAGAAAGAACGTAGGAGGAAAGGTTCTTGGTTTCTTTTACTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA