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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

Basic information

species Physcomitrella patens
transcript PP1S381_18V6.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os01g64630.1 (Oryza sativa), 3'ss of exon 2
-------------------gtagtatcaaatctcca---caaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatca-acatgtaggagtaata--tggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                       | | |||     |   |   |   |    |||  || |  | ||   ||||    ||      |   ||     | | | ||   |  | |||||     |||||||||| || || |||||||| ||| | ||||| ||||| ||||| || ||  ||||| | ||||||||||| ||||| || ||||| |||||||| |
gttagttaattttcctgccacgctgtaaaactgttagttcgcacaattgggatgttcagattctcttttgcctgctaatacatttgtagcacccaacgaattgatcatttcttcatgtggaatagGCCGGTTTTGCTGGTGATGATGCACCCAGGGCTGTCTTTCCTAGCATTGTAGGCAGGCCACGCCACACTGGTGTCATGGTTGGTATGGGCCAGAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os12g06660.1 (Oryza sativa), 3'ss of exon 2
--------------------------------------------------gtagtatcaaatctccacaacc-gtcttct-gtgtctaggtcatgttg-gacctgtgtttaggccaatcaacatgtaggagtaata-tggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                                    |  | |||    ||| | |   | |||| | ||  |    ||   |  | |       |   |||  |  |   |    ||||| |  | ||   ||| |||||||| |||||||| || || || || || || ||||| || |||||||| || || ||  ||||||| || ||||||||||| ||||| ||||||||||
gtcatcatcatcatcaactcaatccaattaaccacctctcacaaatcacaacaacaacaacaaaccataccttatgttcttgcgttcaaaaaattcagtaaacaacaacaacagcaacgataaaccattgataataataatccaa--aattcagGCCGGGTTCGCGGGCGACGACGCGCCGCGGGCGGTGTTCCCGAGCATCGTGGGTCGCCCCCGGCACACGGGGGTGATGGTGGGGATGGGGCAGAAGGACG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os03g50885.1 (Oryza sativa), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                  || |   ||   | ||  |||  | |  |      |    |    ||      |||| |  | |  ||||  | |    ||||| || ||||| ||||||||||| ||| | ||||| || |||||||| ||||| || ||  | ||||| ||||| ||||| || ||||| ||||||||||
----------------gtaagctgtttggatctcagggtggtttccgtttaccgaaatgctgcatttcttggtagcaaaactgaggtg-gtttgtgtcagGCTGGGTTCGCCGGAGATGATGCGCCCAGGGCTGTCTTCCCCAGCATTGTCGGCCGCCCTCGCCACACCGGTGTCATGGTCGGAATGGGCCAGAAGGACG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 2
--------------gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
               | |  ||| ||   |   |   || | | | ||  |    | ||  |  |   |||    || || |  |  |  | |  |      ||| |  |  |||| || || || ||||||||||||||||| ||||| || || || || || || || ||| | ||||||||||| ||||| || |||||||||||||| |
gtaattgtggccacttggcgtcatattctctgcagattcctttttttcaggcagcttttataatttaattt---tcagtcgatgttcattatt--ttccccccatctcttatagGCTGGCTTTGCTGGAGATGATGCTCCCCGTGCTGTTTTCCCAAGTATAGTTGGTCGTCCACGCCACACTGGTGTCATGGTTGGGATGGGACAGAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G053284_T01 (Zea mays), 3'ss of exon 2
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttag-gccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
             | |     | | | | |   | |  || | |||    | | || |   |  ||| | ||  |    |   ||  || |||  |  ||||| |||||||| || || || || ||  | || || |||||||||||||| ||  ||||| | |||||||| ||||||||||||||||| || ||||| |
------------gttcgttctcctgtccagcagccaa-tccttttgcctgtctattcattactgatcta-ataaactgatgggatcttg-atgccaaacagGCAGGTTTCGCTGGTGACGACGCGCCGAGGGCAGTCTTTCCCAGCATCGTAGGCAGGCCACGCCACACTGGCGTGATGGTGGGCATGGGCCAAAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G126190_T02 (Zea mays), 3'ss of exon 2
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacc-tgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
           | |  |   |    |  ||    ||  |||| ||   |    | |||  || |||  |     | |  |  | |     |      |||||| ||||| || || || ||||| ||  | ||||| || || ||||| |||||||| ||  | ||||||||||||||||| |||||||| |||||||| |
----------gtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttt--tcttacaaactattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTCGGACGCCCCCGTCACACTGGTGTGATGGTTGGCATGGGGCAGAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G437445_T01 (Zea mays), 3'ss of exon 3
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggcc--aatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGAC----GGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
        ||||         | || | ||| ||    || | |||    | | || |   |  | | || |    |  || || | |       ||   |||| |||||||| || || || ||  |  | ||||| ||||  ||||| |  |       |   | | |||||||||||||||||||||||||| || |||    
------gtaaattcttgagctcttcatgtgtttcagtttccttttgcctgtttattcatttctgatttaataaactgatgtgatcttg-atgccaaacatagGCAGGTTTCGCTGGTGACGACGCATCGAGAGCTGTCTTTCTTAGCATTGAAGACTTATAGAGTATGCCACACTGGTGTGATGGTGGGCATGGGCCAAAAG----

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G067985_T13 (Zea mays), 3'ss of exon 2
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                     |  |  | ||  ||   |        |||| |  ||   ||||     || |   | ||||    ||  |||  |  |||| ||||| || || |||||||| ||  | || || || || ||||| || || || ||  | ||||||||||| ||||| || ||||||||||||||||
-------------------gtcagcccccgtccctgactttgac--aacctttactt---ccaa-----atatgccactaatt--atgtctgtcttttagGCTGGTTTTGCTGGCGATGATGCACCAAGGGCGGTTTTCCCTAGCATTGTTGGCCGTCCTCGCCACACTGGTGTCATGGTAGGGATGGGACAGAAGGACG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G067985_T06 (Zea mays), 3'ss of exon 2
gtagtatcaaatct-ccacaaccgtcttctgt--gtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaa------tatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
           ||| | ||||  |   |      ||| ||||||        |  ||  |  | ||| |   |  |   | ||        ||  ||  |||  |  |||| ||||| || || |||||||| ||  | || || || || ||||| || || || ||  | ||||||||||| ||||| || ||||||||||||||||
---------tgtctgcgacaatggcactggaatggtcaaggtcagcccccgtccctgactttgacaacctttacttccaaatatgccactaattatgtctgtcttttagGCTGGTTTTGCTGGCGATGATGCACCAAGGGCGGTTTTCCCTAGCATTGTTGGCCGTCCTCGCCACACTGGTGTCATGGTAGGGATGGGACAGAAGGACG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G126010_T03 (Zea mays), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
    | | |  ||    ||   ||||| |    | | |  |   |   ||||||      | |||        |        ||  |        | |||||||||||||| || |||||||| ||  | ||||| || |||||||| || ||| | ||| | ||||| ||||| ||||| |||||||| || ||||| |
--gttgttatctcgtt-cagaagtcttttccaacaaagcaactctactcctgtgac----ctaattgttgctcaactcctcaatatt--------tacagGCCGGTTTCGCTGGTGATGATGCGCCAAGAGCTGTCTTCCCCAGCATTGTGGGAAGACCACGCCACACCGGTGTCATGGTCGGCATGGGCCAAAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 1
---------------------------------gtagtatcaaatctccacaaccgtcttctgtgtct-------aggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaat-gcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                 || | || || |  |    |   |||| |  || |       |  |||| ||  |    |||| |      | ||  || |  | |||| ||   ||  || | | |||| ||||| || ||||||||||| || || ||||||||||||||||| || || || ||  | ||||||||||||||||| |||||||| || || || |
gtacatgatggatcttttgtttttgtattatttgttgaataaacttactgtcatactcttgttggttttatgggaatatcattttacattaatgtt-acttttgtgaatttgaaaaattaat-tgcaacaaatatttgtagGCTGGTTTTGCTGGAGATGATGCCCCACGTGCTGTGTTTCCCAGCATTGTAGGTCGTCCTCGTCACACTGGTGTGATGGTTGGCATGGGCCAAAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA02G10170.1 (Glycine max), 3'ss of exon 2
---------------------------------------gtagtatcaaatctccacaaccgtc-----ttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaat-atggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                        || | | |  |   || |    |      || | ||   |  |||| ||  |    |||| |   |  | ||  || |  | ||||     || || |  || |||| || || || ||||||||||| || || ||||||||||||||||| || || || ||  | ||||||||||||||||| |||||||| || || || |
gtacatgagggatcttttgtttgtgtattaaatttgttgataatgtaactttgacatactttttattggttttatgggaatatcattttacattaatgtt-acttctgtgaatttgaaaaattaattgcaatgaatctt-tgtagGCTGGATTTGCTGGAGATGATGCCCCACGTGCTGTGTTTCCCAGCATTGTAGGTCGTCCTCGTCACACTGGTGTGATGGTTGGCATGGGCCAAAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA02G29160.2 (Glycine max), 3'ss of exon 2
gtagtatcaaatctccacaaccgtct---tctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
 | |     ||   | | ||| |  |    |||| |||| ||  |  |     | |  | | |    |   | |   |   | || ||       |  ||||||| || || || ||||||||||||||  | |||||||| || ||||| || || || ||| | ||||||||||||||||| || ||||| || |||||||
-tggagaacaacacctaaaacagaatggaactgtatctaagttgtcctttggtttt--tgatgatttttctctttcggtgttgatttgtgttcaattttgcagGCTGGATTTGCTGGAGATGATGCTCCAAGGGCTGTGTTCCCTAGCATTGTGGGTCGTCCACGCCACACTGGTGTGATGGTTGGAATGGGGCAAAAGGACG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA13G41060.1 (Glycine max), 3'ss of exon 1
---------------------------gtagtatcaaatctc-----cacaaccgtcttctgtgtctaggtcatg-ttggacctgtgtttaggccaatcaacatg-taggagtaatatggtgcatgtaatgc--agGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                            || |  ||||| |       | ||  |  ||   | |    | | |  || |||   ||  |  |   |  ||  |  |  ||||  | ||     ||  |||   |||| ||||| || ||||||||||||||  | || |||||||| ||||| || || |||||| | ||||| ||||||||||| || ||||| || ||||| |
gttaaaaaaattacgaggatgattttattatttccaaattttgcatgtagaagtgattttgttttgcttgccgtactttgacacatgcatgagaagactaatttactgtgagtgttttgcaatttgctatgtctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA15G04360.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgtt----ggacctgt--gtttaggccaatcaacatgtaggagtaatatggtgcatgtaatg--cagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                                                  ||||||    | |        |  | || || |     |||||     | |||| |   |||   | |||  ||        | ||| ||     || ||||   |||| ||||| || ||||||||||||||  | || |||||||| ||||| || || |||||| | ||||| ||||||||||| || ||||| || ||||| |
gtaaaaaaaataaaatacgaggatgattttattatttccaaattttgcttgtagaagtgatttggatagtatgttcttttttgcttggcgtactttgacacatgcatgtgaagggtaccttttgatttgacctaatttactctggattgaaatttgcaatttgcaatgtgtagGCTGGTTTTGCTGGAGATGATGCTCCAAGGGCAGTGTTTCCTAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatg-cagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
   |||   |||   |||       ||   ||  |    |  |  |||  ||| ||  |   | |   |   |  |    |  ||     |||  |  ||||| || || || ||||||||||| || || ||||||||||| ||||| || || || ||  | ||||||||||||||||| || ||||| ||||| || |
---gtacagaatgcacactttttcgtttgatgctt----ctcgagggaattgttttgcgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 3
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggac-ctgtgtttaggccaatcaacatgtaggag----taatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
||  | |    |||      |  |  | ||    |  ||  |||||    |||    |       ||||  || |  ||      || |  ||| |   |||||||| || || ||||| |||||||||||| | || |||||||| || || || || |||||||||||||||||||| ||||| || ||||| || || || |
gtc-tgttgtttctttcttgct-tgatatgcagatttgttgtgttgtttgctgctcctcaaatgctcaatttgaataagctttccatgttatgctttatatgcagGCTGGATTTGCGGGTGATGATGCTCCCAGGGCAGTGTTTCCTAGTATTGTGGGTCGGCCAAGGCACACTGGTGTCATGGTTGGGATGGGTCAAAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------gtagtat-caaatctccacaaccg-tcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                              ||  | |   ||||| |||| |   |  |    |  |   | || ||  ||     |    |   |      | | ||  | ||    |||      |  ||||||| || || ||||||||||||||  | ||||||||||| || || || || || ||| ||||||||||||||||||| || ||||| ||||| || |
gtatcatatcaggattatcatttgtttagaaataataacctgctaagtcatttatcaatcttcacagctaattctgaaggcttgcatgatattc-actgacatcactgttgaattgttttttggtctgatgcaatgccaacctt-tagGCCGGATTTGCAGGAGATGATGCTCCAAGGGCTGTGTTTCCTAGTATTGTGGGTCGTCCACGGCACACTGGTGTGATGGTTGGGATGGGCCAGAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 1
--------gtagtatcaaatctccacaaccgtcttctg---tgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagt--aatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
          || ||    |||     |  || |  |    ||  |   |  |   |      | |||     | |||   ||    |    | |    ||  | |  |  |||| || || || ||||||||||||||  | |||||||| |||||||| || || || ||  | ||||||||||| ||||| |||||||| ||||| || |
gtatcaaatgaggattctttctatgtgaatgtttagtagaatgcttgtattctacagtctgcctttttcttgtattcagtctgagataactgattgcaatgt-tatcttctagGCTGGATTTGCAGGAGATGATGCTCCTAGGGCTGTGTTCCCCAGCATTGTAGGTCGTCCCCGTCACACTGGTGTAATGGTTGGCATGGGCCAGAAAGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EDO98923 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctg--tgtttaggccaatc-aacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
     ||  ||  |   |    | | |  | ||      |  | || | |    ||||   || || |  |       ||    | ||  ||       |||||| || || || || |||||||| || ||||||||||| |||  |||||| || |||||  | ||||| ||||||||||| || ||||| ||||||    
--tccatttaacttgggcgttgggcctg-gcgtgggccccgcgctgcagcgcgttgttcgagcaaacctgatgctggcgatcgctgtgtcgccgtgtccgcagGCTGGCTTTGCTGGTGATGATGCCCCTCGCGCTGTGTTCCCCTCCATCGTGGGCCGGCCCCGCCACACCGGTGTGATGGTCGGGATGGGCCAGAAG----

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ17401 (Selaginella moellendorffii), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                            ||  |   ||    ||    |       |  ||       ||||  | |  ||||||| || || || ||||| ||||||||| | || |||||||||||||| || || ||||| | |||||| || || ||||| || ||||| |||||||| |
-------------------------------------------gtgcgctcctggcgcggtttcttgtggattttgatccggggggtgtgt-tcttgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

upper sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ35077 (Selaginella moellendorffii), 3'ss of exon 1
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                                            ||  |   ||    |     |       |  ||       ||||  | |  ||||||| || || || ||||| ||||||||| | || |||||||||||||| || || ||||| | |||||| || || ||||| || ||||| |||||||| |
-------------------------------------------gtgcgctcctggcgcgatttcttgtggattttgatccggggggtgtgtttt-tgcagGCTGGATTTGCCGGAGACGATGCTCCCAGGGCCGTGTTTCCCAGCATTGTGGGCCGGCCCAAGCACACGGGCGTCATGGTTGGAATGGGGCAGAAGGATG

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|100370225|gb|BY985305.1|BY985305
EST:     GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAG                         GCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|208349426|gb|DC901762.1|DC901762
EST:     GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAG                         GCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|18359840|gb|BJ191901.1|BJ191901
EST:     GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAG                         GCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGNC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|162194169|gb|FC369681.1|FC369681
EST:     GACAATGGATCCGGAATGGTCAAG                         GCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|18330636|gb|BJ162642.1|BJ162642
EST:     GTGAGGATGTGCAGCCTTTGGTGTGCGACAATGGATCCGGAATGGTCAAG                         GCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|18326607|gb|BJ158606.1|BJ158606
EST:     GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAG                         GCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|67709341|gb|BJ965157.1|BJ965157
EST:     GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAG                         GCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: GTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
EST: gi|162176036|gb|FC351843.1|FC351843
EST:     TGGTGTGCGACAATGGATCCGGAATGGTCAAG                         GCCGGTTTCGCGGGAGACGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC
genomic: TGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTC

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: 5

GTCCGTATTAAATAATGGCAGGAGAAGGTGAGGATGTTCAGCCTTTGGTGTGCGACAATGGATCTGGAATGGTCAAGgtatgctctg ... tgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG
                               agtaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatgcagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG