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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc...

Basic information

species Physcomitrella patens
transcript PP1S165_119V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os07g02350.1 (Oryza sativa), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctg---ggcacggtgaggaatcatcgactagaaacc
  | |   || |  |||||||||||| |||| ||||| || || || || |  || || || || || |||||||||||||||||||||||||||||||||| ||| ||             || || |||   |  | | |  |  |     |    |      |||||   ||  | ||   || |||  | |        
CCCAGATCGGCGCCATGTCCAAGGCCAGGGTCTACACCGACGTCAACGTGCTGCGCCCCAAGGAGTACTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtgagtgcctcccactcctacctcgctacctcgctcttgcttccaccctgtgttgtcgcctctgcatctgcgtgggtcagtttagattcagtgtcggatg---

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 1
-GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccct-ttatgcttccttaattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaa-acc--
 | ||||   | |  ||||| | |||||| || ||| | || ||||| || || || || |  || || |||||||||||||||||| ||||| ||||||||||||  |     |  | | |   || ||      |||| || |      | ||| |  |        |    |||   | |   || ||| |||||| | |  
CGGCGGCGGCG-GCCATGTCGACGGCCCGCGTCTACGCCGACGTGAACGTGCACCGCCCCAGGGAGTACTGGGACTACGAGGCCCTCGCCGTCGAATGGGGgtaagaactgattccttcccacctacgcctcgccgtgctaccgtg---tgattgtcccccccccccccccccccact-cgtgtcgtcgtcgcctagaataacgt

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g55389.1 (Oryza sativa), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgagg---aatcatcgactagaaacc---
||      |  |  ||||| |||||  |||| ||| | || || || || |  || || || || || |||||||||||||| |||||||| ||||||||||| ||  ||  || |  |   | ||  |       | | | | |  ||  || ||  | |   || || |        ||    | |   |||   | | ||   
GATCCAGGGTCGGCATGTCGAAGGCGAGGGTCTACGCCGACGTCAACGTGCTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtaggtagcacagccagccagctgacgtc------accttcctgagccccctgatcagcggccgtagcttgtattctccagatttagttcgcgatccgtatcccgt

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G047855_T01 (Zea mays), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttcctta---attccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc
||          | ||||| |||||   ||| ||||| || || || || |  ||||| || || || |||||||||||||| |||||||||||||||||||||||   ||  |  | ||   ||||  |    ||| | |||     ||   | | | | ||   ||   |  | |  |     ||    | |  | |    
GATCCGGGCCCCTCATGTCGAAGGCAAAGGTCTACACCGACGTCAACGTTCTGCGTCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTCCAATGGGGgtaagtg--attacgttacgtcacactagcaaagtgcgtgcttgtacgttgttacgattttcatttatgcttaagtattgaatataaaagacaaagacatgt-

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G141903_T01 (Zea mays), 5'ss of exon 1
--GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggca--cggtgaggaatcatcgactagaaacc
    |||||     | ||||| |||||   ||| ||||| || || || ||||  ||||| || || || |||||||||||||| ||||||||||||||||||||||       | ||    |    ||  |   |   |  |  | ||   | |||| |  |  |  |  ||      | |  |     |||  |  |     
GATTCGGCCT--CCTCATGTCGAAGGCGAAGGTCTACACCGACGTCAACGTCCTGCGTCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTCCAATGGGGgtaagcgtttacgttacgtcacattctaacaccac-ttggcgcagtttgcacgttcgagcgtaagcttcggttgatggattcgtttgtatctccgtgcggt-

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM5G845755_T01 (Zea mays), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttcctt---aattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc-
||  | | || |  |||||||||||| |||| ||||| || || || || |  || || || || || |||||||||||||| |||||||| |||||||||| |||       || |||   || |  || ||  ||| |||    |  ||    | ||| |    |   |   |  |  ||   | |   | | ||  |    
GATCGGCCGGCGCCATGTCCAAGGCCAGGGTCTACACCGACGTCAACGTGCTGCGCCCCAAGGAGTACTGGGACTACGAGGCGCTCACCGTTCAATGGGGgtcagtgat----ctcttcccctcccctcccttccgctccctcgccagctcgcgcgctctcctcgcacggcctcggccattgtcaattttgccattatcatttg

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 1
--GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattc-gattcactccctttatgcttccttaattccaatgttctacagagatatc--tgggcacggtgaggaatcatcgactagaaacc
   |  | |  |    ||||||||||| || || ||||| ||||| ||||| |  || || ||||| || ||||| |||||| |||||||||| ||||||||||||      |  | |  |  |||   |  ||  |  ||||  | || |  |  ||  ||| || || |  |    |   ||   | |   ||  |       
CCAATCGTCGAGC--CATGTCCAAGGCACGCGTCTACACCGATGTCAATGTTCTTCGCCCCAAAGAGTACTGGGATTACGAGTCCCTCACCGTTCAATGGGGgtaataatgttcccaaccctaattttgtttctggagccttctgttatgctcagattagacacagttaacaatcaatagattgtatatttcgcgttttagg---

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 1
-GACG-GCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaa--tgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc
 |||| ||||      ||||| ||||| || || ||||||||||| |||||||  || || ||||| |||||||| |||||| | |||||| | ||||||||||||  | |    |  |    || |     ||| |   | || |   ||||  ||  | |   | ||    ||| |   |   | || |||   ||||  | 
CGACGCGCCAAAC--CATGTCGAAGGCGCGTGTCTACACAGATGTCAATGTCCTTCGCCCTAAAGAGTATTGGGATTACGAGTCTCTCACCCTTCAATGGGGgtaatgttccgaaccctaatttttatgttgtttttttcttctgatccccaaagtgaacaattcacatgaagggggattttattgtatgatc--ttagagtct

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA05G22320.1 (Glycine max), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttcta-----cagagatatctgggcacggtgaggaatcatcgactagaaacc--------------------------------------------------------------------------
| || || ||       ||||||||||| || ||| | ||||| || |||   || || || || ||||||||||||||| |||||| |||||| |||||||||  | |  |  | | |       |  |||| | |||  ||   | | || ||| |        ||   | |        |      |  |    | || | |                                                                          
GCCGCCCCGGCTCGTCCTCCAAGGCCCGCGTCTACGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttag

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc---------------------------------------------------------------------------------------
| || || ||||     ||||||||||| || ||  | ||||| || |||   || || || || ||||||||||||||| |||||| |||||| |||||||||    |||  |   |       || | |||||  ||  |     ||   | | | || | |  | |   |    | |    | ||  | |    |                                                                                         
GCCGCCCCGGTGCCTCCTCCAAGGCCCGCGTCTATGCCGATGTCAACGTCGTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaa----cataacagattctccttcttcttttattgtttttcc-ccccttcgattttcaaatacctttaaccttttttattttttatttattttggataatataaatgttttcttttttccttttccaaagtaaaagggaatttagggttgttgttgttgttattgttgtgactctttttttttag

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgaggaatcatcgactagaaacc--------
| || || || | |   ||||||||  |||||||| | ||  | |||||    || || ||||| ||||||||||||||| |||||||||| |||||||||||| |    ||| ||    |   |  || |||| ||||||        |||||   | |  ||| |      |   |  ||| |||  | || || | |        
GCCGCCCCGGCGCTCCCTCCAAGGCTAGGGTTTACGCTGACATCAATGTGATCCGGCCCAAAGAGTATTGGGACTACGAGTCCCTCACCGTTCAATGGGGgtaa-tagtttggttaccttaaagatcccgttta-gcttccaagga---aatgtagga-atggattttcaattat--ttgggactcagggcctcgagaacctctaatc

upper sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgagga-atcatcgactagaaacc-
     |||| |   |||||||  || || || ||| |||| || ||  | || || || | |||||| |||||||||||| | |||||||| ||||||||||||   | |     ||       | |  |||  | | | |   |  ||  | | |   |  ||| ||  |  |  || |  |  |   |   |        
-----CCAGAT--CATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactac--tcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta

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|100439869|gb|BY980280.1|BY980280
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|208360006|gb|DC939310.1|DC939310
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|18351813|gb|BJ183865.1|BJ183865
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|18373505|gb|BJ205083.1|BJ205083
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100447198|gb|CJ971497.1|CJ971497
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|67709495|gb|BJ965311.1|BJ965311
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100397857|gb|BY990436.1|BY990436
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100422751|gb|BY957982.1|BY957982
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100386905|gb|BY988174.1|BY988174
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100401634|gb|BY954629.1|BY954629
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100436225|gb|BY979442.1|BY979442
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100360406|gb|BY984111.1|BY984111
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|18367245|gb|BJ199326.1|BJ199326
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100422530|gb|BY976419.1|BY976419
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|100390752|gb|BY971507.1|BY971507
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
EST: gi|67574586|gb|BJ947410.1|BJ947410
EST:     CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGG                         GGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG
genomic: CAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttcca ... cgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAG