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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttctgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag...

Basic information

species Physcomitrella patens
transcript PP1S7_163V6.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 11
CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaat-atgttctcacatttaagacttcaacatcttaatcagttagttctgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag
|||||| || || ||| | || |||||| | |||||||| ||||| || |||||||| ||| | || ||||| ||||||||||| ||||| ||||| ||||| || ||  ||    ||   | |||| |   |      ||  || |      | | | || |  |  | | |   |  |||                   
CTTAAAACGGTGTAAACTCTCAGGAAACATATTCAATATTCTTTTCAATCTCAACAAGTTCATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgattataatccttaat---aaactttagatttgctgccaagtatt-----aagttaaataattggctaatgtttaattgtag-----------------

upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
-CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttctgag-aatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag
  ||||||  | ||||| | ||||||||  | |||||||| ||||| || |||||||| ||  | ||||| |||||||||||||| || || || |||||||||| |       |   || ||| | | | |||   | || |||   || || |||  || ||     |||  |  | | |   |  | | || |      
TGTTAAAGGCA-GCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaa-----taagattgaga-tcctatatcactaacaattaaggcttagtaatcttagcaagttctgattacaacaagggtattttgtttag------

upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 10
CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttc--tgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag
| | ||  | |  ||  | ||||||||| ||||||| ||||||||||| || ||||||||  | || ||||| || || ||||| ||||| |||||||||||| ||      ||| ||| | | |  | | |  |  |   ||    |  || |  |  ||| |||     ||   || | |   ||               
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgtactac---tccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacatttcaaatgtcaaacgaaaacag-------------

upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 5'ss of exon 11
CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttctgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag
| | ||  | |  ||  | ||||||||| ||||||| ||||| ||||| |||||||||||  | || ||||| || || ||||| ||||| |||||||||||| ||  |  ||  |||||   | |    | |||  |||           |  |  ||| |||     ||   || | |   ||               
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTATTTAATCTCAACAAATTTATGGCATTTGAAACCCGGGATCCATTCCTCATTCGTCAGgtacta-atcatctaattta---ccttgcta-cttcttcacaccaccacatgcgtcttataacatttctaatgtcaaacggaaacag-------------

upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT5G44090.1 (Arabidopsis thaliana), 5'ss of exon 11
-CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaa-tatgttctcacatttaagacttcaacatcttaatcagttagttctgagaat-gatatcacagc-gtgaagaacagatgttcacctaggttggtcatag
 || ||||| || |||| | ||||||||  | |||||||| || |||||||| ||||||||| | || ||||| || ||||| ||||| || |||||||||||||  ||    |  |  |  ||  |||  |   ||  | | | | | ||  |  | | | |   | | || |  |    || || |   | |      |   
TCTGAAAGC-ATCCAAACTTTCTGGAAATATTTTCAATATACTCTTTAACCTGAACAAATTCATGGCGTTTGAAACCCGTGACCCTTTTCTCATTCGTCAGgtaaacataggttttctatagagttttcctccctttggttattcaatccttcgtttagctgttgaaactgttactactgaatatttattaatgccataaa---

upper sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv14s0036g00750.t01 (Vitis vinifera), 5'ss of exon 8
CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttctgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag
||| ||  | || ||| | |||||||   |||||||||||||||| ||||| || || ||  | |||||||| ||||||||||| || || |||||||||||||     ||  | | || |  |||     | || ||   ||  |||  |  |||  || ||| |        | |||| |    |    ||  ||   
CTTGAAAGGTTGTAAACTTTCTGGAAGTGTCTTCAATATCCTTTTCAACCTTAATAAGTTTATGGCTTTTGAAACTCGTGATCCATTTCTCATTCGTCAGgtaaa----tcaaatagtttactcttgttagtttttatgtattgtttc--atcatg-cataacaactcc-----ctgatgcttttatgatatgaccag--

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|162261177|gb|FC437506.1|FC437506
EST:     TCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAG                         GAGAGAGAGGACCCGTCATTAACTGAGTGGGATCGATTTGCACACATTGAG
genomic: TCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgtt ... ctttgggcagGAGAGAGAGGACCCGTCATTAACTGAGTGGGATCGATTTGCACACATTGAG
EST: gi|18334323|gb|BJ166340.1|BJ166340
EST:     TCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAG                         GAGAGAGAGGACCCGTCATTAACTGAGTGGGATCGATTTGCACACATTGAG
genomic: TCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgtt ... ctttgggcagGAGAGAGAGGACCCGTCATTAACTGAGTGGGATCGATTTGCACACATTGAG