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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT

Basic information

species Physcomitrella patens
transcript PP1S45_100V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os01g73130.1 (Oryza sativa), 3'ss of exon 1
---aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagc-gcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
   ||  |    |||  |  ||          | |     |  ||   |    ||   |  |   ||||  ||   |  |    |   |||| |      ||||||||||| || || || || || ||   ||| || || || |||||   |||||| ||||||||||| |||||||||||||||||||||||||| |||||
agaaaaaaagatcgtaaaaagctcgatcaaacgatc----gatctgcaagtttctgcattacgaattacgaattgatggatgaaatttggttataattttgcagGCATGGGGGCGGCGTACGGGACGGCTCGGAGCGGCGTCGGGGTGGCGCACATGGGGGTGATGCGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g01560.1 (Oryza sativa), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
          ||      || |||||    ||       |||||     |   ||  | |||   | || |||  |    ||            ||  |||||||||||| || || || || |||||||| || ||||| ||||| |||||||| |||||||| || || |||||||||||||| ||||| || || ||
----------gtaagctcccaatcttccccttc------actttctcggg---gccagatctgatctgagatg--aggttgacacacgacgcatgca-agGCATGGGCGCCGCCTACGGCACCGCCAAGAGCGGCGTGGGCGTGGCGTCCATGGGGGTGATGCGCCCGGAACTGGTGATGAAGTCCATCGTCCCCGTCGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os11g06890.2 (Oryza sativa), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctc-gctctttaccg----atatgttaacccgaggaggttt--ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
           |||  |  |    |||| |     ||    |  || |       || | |||| |  |    || || | |   |      ||   |     ||||||||||| || || || || || || ||||| || || || ||||| |||||||| |||||||| || ||||| ||||||||||| |||||||| |||||
-------ccgattggagatcggatttgtggggaaaaaaagttgggagctttggattctgttcttgatggggggatttgcttatttgctttcattcgatctgttgcagGCATGGGTGCGGCGTACGGGACGGCGAAGAGCGGCGTCGGCGTGGCGTCCATGGGCGTGATGCGCCCGGAGCTCGTGATGAAGTCCATCGTGCCCGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G101020_T01 (Zea mays), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaaccc---gaggaggtttttgag-cgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
    || ||  ||| ||    |||    ||  | | | |  |  |  |    |  | | |  | |  || ||| |  |||   | | | || | ||   |||||||||||| || || || || |||||||||||||| || || ||||| ||||||||||| ||||| || ||||| || |||||||| |||||||| |||||
---gagagaatttg-ggttggatccatgtggctgggacgtgtgagggcgaaatttttggtggtgaatgacatgatctccctctgtgtatgtgtgtggctcgcagGCATGGGGGCGGCGTACGGGACAGCCAAGAGTGGCGTCGGCGTGGCGTCCATGGGTGTCATGCGCCCAGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G177005_T01 (Zea mays), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctt-taccgatatgttaacccgaggaggtttttga----gcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
     ||    | | | | |  |||    | ||  |   |    | |  ||||  ||| ||    |         ||  | |      |  ||||    |||||||||||||||| || || || || || ||||| || || || ||||| || ||||||||||||||||| ||||| || |||||||| |||||||| |||||
---tggtccgatcgggtgtcagtctgtcggattccagaaagc--ggtgggctttttcggtcgggcagttgctgactaggctgttattttgcttgatccggcgcagGCATGGGCGCCGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
-aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
 |    ||    | | | |      ||      | ||  | ||||   |  |   |  ||   |      || | |   |    |     |  ||  |||||||||||||| || || || || || ||||| || || || ||||| || ||||||||||||||||| ||||| || |||||||| |||||||| |||||
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccga-tgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM5G893252_T01 (Zea mays), 3'ss of exon 1
--aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtt--tttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
  |||||    | |       |  ||      || |      |||| | ||||  | ||   |   | | ||   | |  || |  |  |    | | ||  |||||||||||| || || || || |||||||| || || || || || |||||||| || ||||| |||||||| || |||||||| ||||| || || ||
gtaagcacc--catcagatctccctccctcccttctctgtctctttcaccagccggatccaacc--atccattcctcactcccatcacctcggctggtgcctagGCATGGGCGCCGCCTACGGGACGGCCAAGAGCGGCGTCGGCGTCGCCTCCATGGGCGTCATGCGCCCCGAGCTCGTCATGAAGTCCATCGTCCCCGTCGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA13G03470.1 (Glycine max), 3'ss of exon 1
--------------------------------------------------------------------------aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagct-tgctcgctctttaccgat------atg--ttaacccgaggaggtttt------tgagcg-cagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
                                                                           ||   |  ||| |  ||   | |  ||| || | ||   ||||    | || |  ||| |   ||| |||      |||  |||  | | ||  |||||      |||  |  ||| ||||| || || |||||||| || |||||||| ||||| ||||| || ||||| |||||| |||| |||||||||||||||||||||||||| |||||
gttcgtcactctctttttatttgtaaaattttattcaatataacgataacaataataataataatattagggtctagatctatcgtagttggttgaaca-gttattgtaaaaacctttttgtacctgtcttcgattgctacagattaaaaaatgatttattctgtggctgttttattttatgattggtagGTATGGGAGCGGCGTATGGAACGGCGAAGAGTGGGGTGGGGGTGGCGTCGATGGGAGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
-------------------------------------------------------------------------aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgct------cgctctttaccgatatg--ttaacccgaggaggttttt--------gagcg-cagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
                                                                          |  | | |     ||   ||| | ||   | |||||    ||   | | ||  ||      ||   |  |   |||||  |||  ||| ||   || ||        ||  |  ||| ||||| || || || ||||| || |||||||| ||||| ||||| || ||||| |||||| |||| |||||||||||||||||||||||||| |||||
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagc-tctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgatttattccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA04G00950.1 (Glycine max), 3'ss of exon 1
-aagca-gtgacgttgag-ggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
 |  || ||||   |||  |  | |||   |  |  |    |  ||   | |  |       ||| |   ||  |                | ||||    ||| ||||| ||||| ||||| ||||| |||||||| ||||| ||||| ||||||||||||||| | || ||||||||||||||||| || || || || ||
cactcatgtgaaagtgattgatcgatcgaatcttaatcttagggttgtttgaagtgataaaatctgtgaggaatttcatttgtatttgaactgttga---tagGTATGGGAGCTGCCTATGGCACAGCAAAGAGTGGTGTGGGCGTGGCTTCCATGGGTGTGATGAGACCTGAGCTGGTGATGAAGTCTATTGTCCCTGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA06G00980.1 (Glycine max), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatc---agcttgctcgctctttaccgatatgttaacccgaggaggttt---ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
    | |  |     | |   |  |  ||| |     | | ||| |||    | ||| | | | |  |  ||||         |||||  |||   |||     ||| ||||| ||||| ||||| ||||| |||||||| ||||| ||||| ||||||||||| ||| | || |||||||||||||||||||| || || || ||
----aatttcac-acgtgtgaaagtgattgatcgatcgaattttaatcttagggttgtttgtt-tgaattgataaaaatttgtgaggaattttattttgttgatagGTATGGGAGCTGCCTATGGCACAGCGAAGAGTGGCGTGGGCGTGGCTTCCATGGGTGTAATGAGACCTGAGCTGGTGATGAAGTCGATTGTTCCTGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA12G04090.1 (Glycine max), 3'ss of exon 1
---aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
   |   |  ||     |  |    |||     | ||  |   |||||       ||     |  |     |||||   |   |       |  ||   | ||| ||||| ||||| ||||| ||||| |||||||| ||||| ||||| || |||||||||||| | || ||||||||||||||||| || || || || ||
tgtatataaagaaagaaaaagaaattctgagcttcttcgatagctttgcattttctgtagatttatctttaatatg---aattgtttgaactgatggaggaagGTATGGGAGCTGCCTATGGCACAGCGAAGAGTGGCGTGGGCGTGGCTTCGATGGGTGTGATGAGACCGGAGCTGGTGATGAAGTCTATTGTCCCTGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA11G11760.1 (Glycine max), 3'ss of exon 1
--aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
  | ||    |  |  ||     |    |   ||  ||    ||| | |    ||||    | | |   ||| | |       |  |  ||  ||   | ||| ||||| ||||| ||||| ||||| |||||||| || || ||||| || |||||||||||| | || ||||||||||||||||| || || || || ||
ttatgcgtatatataaagaaag-acaaagaaattcagagcttcttcgttagctttgcattttttctgtagatttatctttaatactaa-ttgatggatgaagGTATGGGAGCTGCCTATGGCACAGCGAAGAGTGGCGTTGGCGTGGCTTCGATGGGTGTGATGAGACCAGAGCTGGTGATGAAGTCTATTGTCCCTGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA16G24220.1 (Glycine max), 3'ss of exon 1
------aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
      ||    | |  |  | |   | | || || ||||  |  | ||     | |    ||| | | | | || |   |    ||     ||||||     |||| ||||| || || || ||||| || ||||| || || || || || || ||||| |||||| |||| |||||||||||||| ||||||||||| || ||
gtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttat-ctgaaaccgtgtgtcgtttttgtttttt----cagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA02G05630.2 (Glycine max), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgct-----ctttaccgat--atgttaacccgag-gaggtttttgagc--gcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
            | |    ||| ||  |    |  |||   |||  |   ||   |  |      | |   || |  || |||| ||| | |  |||||||      |||| |||||||| || || || || || ||||| || || || || || || ||||| |||||| |||| |||||||||||||| ||||||||||| || ||
-----------gtaactaactaactcatcaaatcaaagagttttttttgtctcatttcccgaaaccgtcgtcgttttatcttaaaccgtgtgtcgtttttgttttttcagGTATGGGCGCGGCGTACGGCACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G38920.1 (Arabidopsis thaliana), 3'ss of exon 1
---------aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
               | |  | || ||| | | |  ||  ||      ||  |  | || |||   |  ||| |    | |||      | |     || | | |  ||| ||||| ||||| || || ||||| |||||||| |||||||||||||| |||||||||||| |||| ||| ||||||||||||| || || ||||| ||
aattatgctttttcttcatatcgaaggcatgt-tgattacttgtgtaaaccatagttagattgt--gaccttaaagagtgtgtatctttgtg-----ttattaaca-agGTATGGGAGCTGCGTACGGGACAGCAAAGAGTGGTGTGGGAGTGGCATCTATGGGTGTGATGAGGCCGGAGTTGGTGATGAAGTCTATTGTCCCAGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT2G16510.1 (Arabidopsis thaliana), 3'ss of exon 1
aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgagga-ggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
 |  ||||   ||        |||| | | ||  | |    ||||      |   | | ||       | |||  |    |     || |||||     ||| ||||| ||||| ||||||||||| |||||||| || || ||||| || ||||| |||||| | || ||| |||| |||||||| || || || |||||
-attagtgttcttagatcagaatctggattttaggtattgatttgtgattgtgattgggtcgggcgtaaaatgagatgttgttactggattttggttttagGTATGGGAGCTGCTTATGGAACAGCAAAGAGTGGTGTTGGTGTGGCTTCAATGGGAGTGATGAGACCTGAGTTGGTTATGAAGTCTATTGTCCCTGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv03s0038g00790.t01 (Vitis vinifera), 3'ss of exon 1
aagcagtgacgttgagggcctat-cttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
|  |  | |  |      | | | |||  | || | ||  ||       || |   | | ||||      |   || ||    |    | |        ||| ||||| ||||| |||||||| || |||||||| || |||||||| || ||||| |||||| |||| |||||||||||||||||||| || ||||| ||
attcgataatttcttctccttcttcttcattttctcaataaccggacatagatatatagatcttcgattctg-attgactgttgtttttataatttttgagGTATGGGAGCTGCGTATGGAACGGCGAAGAGTGGCGTCGGAGTGGCGTCGATGGGAGTGATGAGGCCGGAGCTGGTGATGAAGTCGATTGTACCAGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv18s0001g13630.t01 (Vitis vinifera), 3'ss of exon 1
---aagcagtgacgttgagggcc-tatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgag--cgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
    ||||   |    ||||    | ||     || |||   |  || |||  |  | || |  |||| |  |  ||   | | ||     | |||| |  | |||| ||||| |||||||||||||| || ||||| || || || ||||| ||||||||||||||| | || ||||| || |||||||||||||| ||||| ||
tctcagcaaccaaaccgaggttaatgtccgtccgtcttg---ggtttggatttggat-ctagggcttttcaaacgtg--gatctgattttttatttgggatctcagGTATGGGAGCTGCATATGGAACCGCAAAGAGCGGGGTTGGTGTGGCCTCCATGGGTGTGATGAGACCGGAGCTTGTTATGAAGTCGATCGTTCCAGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv18s0001g02650.t01 (Vitis vinifera), 3'ss of exon 1
aagcagtgacgttgagggcc-tatcttgttgttttgaaggactt---tgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
   |   ||     || |   ||| ||      | | |    ||   ||   |      | |  ||||     |    |    | |   | || || |   ||||||||||||| || ||||| || || ||||| || ||||| ||||| |||||||| |||||||| || ||||| || ||||| ||||| || ||||| ||
-tccgacgaaacaaagtgttgtattttcccacatcggaactgtttcctgtggaaacaaatggggcttttttcttggaatgtttctaatggcttcttta---cagGCATGGGCGCGGCCTATGGGACTGCAAAGAGCGGGGTGGGTGTGGCCTCCATGGGAGTGATGCGACCGGAGCTCGTCATGAAATCGATTGTCCCAGTTGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ14420 (Selaginella moellendorffii), 3'ss of exon 1
----------------------------------------------------------------------------aagcagtgacgttgagggcctatcttgttgttttgaaggactttg-----atcagcttgctcgctctttaccgatat-----gttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
                                                                            ||    |||  ||| |        | |   |  ||   || ||       |  | |  |     ||  | || | ||      ||  |    |||  ||| |    ||||||||||| ||||| |||||||| || |||||||| || ||||||||||||||||| ||||||||||| ||||| |||||||| |||||||||||||||||
gtaagttcttgcctctcaccgccatggctggactggatctagggttgtggtgcgtgtctcggctgcgcggcattgcaatgcctgagcttgggccatggattcgccttcctgcgcgatttccttgccacaatcccgagatttcgatcccaaaattccccattttcttatggaattttctt--tgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCATCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGT

upper sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ26016 (Selaginella moellendorffii), 3'ss of exon 1
----------------------------------------------------------------------------aagcagtgacgttgagggcctatcttgttgttttgaaggactttg-----atcagcttgctcgctctttaccgatat-----gttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
                                                                            ||    |||  ||| |        | |   |  ||   || ||       |  | |  | |   ||  | || | ||      ||  | |  |||  ||| |    ||||||||||| ||||| |||||||| || |||||||| || |||||||| |||||||| ||||||||||| ||||| |||||||| |||||||||||||||||
gtaagttcttgcctctcaccgccatggctggactggatctagggttgtggtgcgtgtctcggctgcgcggcattgcaatgcctgagcttgggccatggattcgccttcctgcgcgatttccttgccacaatcccgatatttcgatcccaaaattccccattttctcatggaattttctt--tgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCGTCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGT

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|67720441|gb|BJ970700.1|BJ970700
EST:     CGCCCCCTTTTTTGGCTTCATNGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|37833247|gb|BJ591259.1|BJ591259
EST:     CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|208382900|gb|DC928325.1|DC928325
EST:     CGCCCCCTTTTTTGGCTTCA-TGGAGCTGCAGCTGCCCTCGTTTTTTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|162239793|gb|FC417192.1|FC417192
EST:     CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|37833369|gb|BJ591381.1|BJ591381
EST:     CGCCCCCTTTTTTGGCTTCATNGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|162239794|gb|FC417193.1|FC417193
EST:     CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|37829944|gb|BJ587956.1|BJ587956
EST:     CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|208388270|gb|DC956992.1|DC956992
EST:     TGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: TGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
EST: gi|37829724|gb|BJ587736.1|BJ587736
EST:     CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCAT                         GCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA
genomic: CGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCA

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), 33 (downstream exon)
Score: 16

AACCTGCTAGACACCATGTCCACTGCTGCTGTGTTCAACGGGGATGAGGTCGCCCCCTTTTTTGGCTTCATTGGAGCTGCAGCTGCCCTCGTTTTCTCATgtatgcattg ... ttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT
                          tgttaac  putative branch site (score: 16)
                                          ttttt  putative PPT
                       atatgttaa  TA-rich tract