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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatttttatatattcgaaaaaggttcacgtacaaataggataacaaactctgctaggttgtggatttaatgtacaaagatgaatgctacgtact...

Basic information

species Physcomitrella patens
transcript PP1S114_48V6.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 2
TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatttttatatattcgaaaaaggttcacgtacaaataggataacaaactctgctaggttgtggatttaatgtacaaagatgaatgctacgtact
| ||||| || || || ||||| ||||||||||||||  |  | ||||| ||||||||  | || || || |||||||||||||| || || ||||||||||||||   ||  |  || ||          |   ||   ||  | |       |||| |    |      |||   ||  ||||    |   | |||  
TTTTCTTTGCTGGCATCATTGTCATCTGTCTGGATGAACTTCTCCAGAAAGGTTATGGCTTGGGATCTGGCATTTCTCTGTTCATTGCTACCAATATCTGgtaagcatcttggacttaatc----------cttttattgatgtgctg-----ttctgttgcacttaaagctta---taataagaattctttcatgtag-

upper sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA12G17950.1 (Glycine max), 5'ss of exon 3
TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctattttt-------------atatattcga--aaaaggttcacgt---acaaataggataacaaactctgctaggttgtggatttaa----tgtacaaagatgaatgctacgtact--
| |  || || || |||||||| || ||| |||||||| |  | ||||| || |||||  | || || ||||||||||||||||| ||||| ||||| ||||||| | | ||              || ||||| |  |    | |   ||   | | | |  ||   | |  |||   |||  |  ||  ||    ||||  ||         || ||     
TCTGTTTTGCAGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAGAAAGGGTATGGTTTAGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttcttgttaataacttacaatttattccatcattgagcttgtgtctcatagaaactattgaacaaactgtatggtcttttatcaaaaacttgtatgaattctctcattatgttgcag

upper sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA06G32680.1 (Glycine max), 5'ss of exon 3
TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctat-------ttttatatattcgaaaa--------aggttcacgtacaaataggataacaaactctgctaggttgtg-gatttaatgtacaaag-----atgaatgctacg--tact------
| |  || || || |||||||| || ||| |||||||| |  | || || || |||||  | || || ||||||||||||||||| ||||| ||||| ||||||| | |        || || ||||  | ||        ||  ||  |      |   ||| |||    |   |   |||  | | |  | || |||      |||||| ||  |  |||       
TATGTTTTGCGGGTATTATTGTGATATGTTTGGATGAGCTCCTTCAAAAAGGCTATGGCTTGGGATCTGGAATTTCTCTGTTCATTGCCACTAATATATGgtaagttttattgtcccttaatttattgtataatttattccagcatcgagcttgtgtctcatagcaactattagcaaagtgtatggtcttttataaaaaacttatatgaattctctgattacattgcag

upper sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 5'ss of exon 3
TGTTCTTCGCCGGAATTATTGTTATCTGTCTGGATGAGTTGTTACAGAAGGGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatttttatatattcgaaaaaggttcacgtacaaataggataacaaactctgctaggttgtgga---tttaatgtacaaagatgaatgctacgtact-----------------------------------------------------------------------
| |  || || || || ||||| || ||| | |||||  |  | ||||| || ||||||||||| || ||||||||||| ||||| || || |||||||||| |||   |  |   | |||    |   ||    |  |  ||  ||    |||   |     |||  ||   |||| | |  |      |  |    ||                                                                          
TCTGTTTTGCTGGTATCATTGTGATATGTTTAGATGAACTTCTGCAGAAAGGATATGGGCTTGGCTCTGGAATTTCTCTTTTCATAGCAACTAATATCTGgtgagcatctggttctttttctgggattttttttattaatttatcattttgaacatggaatatttgaagaagctttactatctagcagccagcgtctggtgaatgtggtctcatttctgggttgaccattaactctactgtcaaatagtgacaattgttttgatcaattggcag

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|100362213|gb|BY947246.1|BY947246
EST:     GTTATGGGCTTGGGTCAGGAATTTCTCTNGT-CATCGCCACGAATATCTG                         TGAAAACATCATCTGGGAGGCATTTAGCCCAACTACTATCAAC
genomic: GTTATGGGCTTGGGTCAGGAATTTCTCT-GTTCATCGCCACGAATATCTGgtaagctatt ... tttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAAC
EST: gi|100364799|gb|BY947914.1|BY947914
EST:     TTATGGGCTTGGGTCAGGAATTTCTCTNGT-CATCNGC-ACGAATATCTG                         TGAAAACATCATCTGG
genomic: TTATGGGCTTGGGTCAGGAATTTCTCT-GTTCATC-GCCACGAATATCTGgtaagctatt ... tttctcgcagTGAAAACATCATCTGG
EST: gi|162185703|gb|FC361557.1|FC361557
EST:     GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTG                         TGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG
genomic: GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatt ... tttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG
EST: gi|162179032|gb|FC356433.1|FC356433
EST:     GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTG                         TGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG
genomic: GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatt ... tttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG
EST: gi|162166591|gb|FC343483.1|FC343483
EST:     GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTG                         TGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG
genomic: GGTTATGGGCTTGGGTCAGGAATTTCTCTGTTCATCGCCACGAATATCTGgtaagctatt ... tttctcgcagTGAAAACATCATCTGGAAGGCATTTAGCCCAACTACTATCAACAGTGGTCG