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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac...

Basic information

species Physcomitrella patens
transcript PP1S90_139V6.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: LOC_Os02g52420.1 (Oryza sativa), 5'ss of exon 4
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggt--ttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagc-gaccctgggtgatagtgcgaagtcttagtttgctggtcac
 || ||||| || ||||||||| |  ||||||||||||| || || ||||| || |||||||||||||||||||| || ||||| || ||||| ||||| ||  |   |   ||||   |  ||   | | | |    |  | |  || |||     | |   ||||     || ||  |                       
ATACCCTTCGCCACTTGGTTATTGCGGTTTTCCAAAGAGTGTCTGCACCTCAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatccaaaattggagataacacacacatactgcatacatataagaaagttacaaattgacctcctttgttacag-----------------------

upper sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac
 |||||||| |||||||||||| |  | |  |||||||| || || || || || ||||| |||||||||||||| ||||| || || ||||| ||||||||  |     |   | |||| || | |  |     | ||| |  || |||    |  |   |   |   ||  ||                         
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagcc---atccaaaatccagagataaca-actttgaataaataagaaaacttacaattaattttcatggcag-------------------------

upper sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA01G39200.1 (Glycine max), 5'ss of exon 4
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac
 || || |||||||| || ||||| |||||||| ||||| || || || ||||||||||| ||||| || ||||| || || || |||||| | |||||||||  | |    ||||||      | ||| |||     |||  |  ||         |   |   | | ||| |      | ||||  ||||| |     
ATACCCATCTCCTCTCGGCTATGGTAGTTTTCCTAAGAGTGTCTGCACATCTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttct----atacaa------gttcttttgaagttaaacatcctgtgtga----aaaaaaatttgttgacac-----attctttatttgcag-----

upper sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgt-tggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac
||||||||| ||||||||||||||| |||| || || || ||||| || ||||| ||||| ||||| || ||||| || || || ||  | |||||||||||  | |||   || |     | ||     ||     |  |   ||||      | ||   ||  ||   | ||| ||    || |   || || |     
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaa--cagatttttatctctgtcccttatgaatct---taataatgtattgtttcctttggcag-----

upper sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv07s0031g00820.t01 (Vitis vinifera), 5'ss of exon 4
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttggaaatacaatctagtgctct----cttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac
 || ||||| || || || |||||  | |||||||||||||| || || || || ||||| ||||| || ||||| || || || |||||||||||||||||   |||      |  |  |||   |||    |  | || |  || | ||       |  ||    |        |  | | || |  |  ||||| |     
GTACCCTTCCCCCCTAGGCTATGGTGGATTTCCAAAGAGCGTCTGCACATCAGTGAATGAATGCATTTGCCATGGAATACCAGATTCCCGTCCACTTGAGgtctattttacttaaggacttagatttcttgagccagtgtggttaagtcattgtgtttttaagtagtca-aatcacttatacaaaattgtcatttgcag-----

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|162163706|gb|FC339785.1|FC339785
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|162209803|gb|FC385737.1|FC385737
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|162279385|gb|FC455932.1|FC455932
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|67698886|gb|BJ959119.1|BJ959119
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|100378011|gb|BY949635.1|BY949635
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|100361031|gb|BY946879.1|BY946879
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|100378215|gb|BY949738.1|BY949738
EST:     TGTNAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTTGAG                         -ACGGAGATATTATTTATATTGACGTCACAGTCTGGGTAAAT
genomic: TGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTT-GAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|37828378|gb|BJ586390.1|BJ586390
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
EST: gi|37848383|gb|BJ606391.1|BJ606391
EST:     CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAG                         GACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT
genomic: CTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttgg ... aataatgcagGACGGAGATATTATTAATATTGACGTCACAGTCTGGTTAAAT