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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtattgttgcggatgaagactagtaaaggcattattttacttatattatacctgtcaatcgcttgcactaagcattttgtttcctcgggttgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAAAGTCTCATTTCTGACCAAAACCGCAGCATTGCTACTCTTGCAATCACTA

Basic information

species Physcomitrella patens
transcript PP1S41_154V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S41_154V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 8
gtattgttgcggatgaagactagtaaaggcattattttacttatattatacctgtcaatcgcttg--cactaagcattttgtttcctcgggttgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAAAGTCTCATTTCTGACCAAAACCGCAGCATTGCTACTCTTGCAATCACTA
  ||   | |       |     ||||     || |    || |    |      | ||  |  |     ||| ||||  || |     |    ||  |||||| |||  ||| |||||| | |||||||||| ||||||||| || ||||||||| | || |||||||| ||| | ||||||||||| ||||| || ||||
aaatcaataccttcactggtccctaaatattctaatgagatt-tgccgtggtcaaccatgacaaggtttttaatcattaagtgtgacttgaaacttg-gcagGTGGCAATGACGCATCCAATGGCAGTCACCAACTGCAACATTGATATGGAAAGTTTAATCTCTGACCAGAACAGAAGCATTGCTACCCTTGCTATTACTA

upper sequence: PP1S41_154V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GLYMA04G01470.1 (Glycine max), 3'ss of exon 8
gtattgttgcggatgaagactagtaaaggcattatttt-acttatattatacctgtcaatcgcttgcactaagcattttgtttcctcgggttgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAAAGTCTCATTTCTGACCAAAACCGCAGCATTGCTACTCTTGCAATCACTA
  ||     |    |  |     ||||     || |   | ||    |   |       || |      ||| ||||  || |     |    ||   ||||| |||  ||| |||||| | |||||||||| ||||||||| || ||||||||| | || |||||||| ||| | ||||||||||| || || || ||||
aaatcaagactttcgctgttccctaaatattctaatgagatttgccatggtcaaacatgtcacggtttttaatcattaagtgtgtcttgaaacttg-acagGTGGCAATGACGCATCCAATGGCAGTCACCAACTGCAACATTGATATGGAAAGTTTAATCTCTGACCAGAACAGAAGCATTGCTACCCTCGCTATTACTA

upper sequence: PP1S41_154V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 8
gtattgttgcggatgaagactagtaaaggcattattttacttatattatacctgtcaatcgcttgcactaagcattttgtttcctcgggttgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAAAGTCTCATTTCTGACCAAAACCGCAGCATTGCTACTCTTGCAATCACTA
||  || |     |||  |  |  |      | |  | | ||  |  ||       ||    ||  | |||  ||  | ||   |  |  |  | ||||||| |||  ||| |||||| | || || || | ||||||||| || |||||||| || ||||||||||| ||| | |||||||| || || |||||||| |
gtgatgctcattttgactataatcattttgctaacctgattttgaccatgataacaaaatttttataataataataatcttaaatttgaattctttgcagGTGGCAATGACACATCCAATGGCTGTAACTAACTGCAACATAGATATGGAAAGCCTAATTTCTGACCAGAACAGAAGCATTGCAACACTGGCAATCACCA

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|162210688|gb|FC386584.1|FC386584
EST:     GTTCATCTAAGCCCGTTCTGCGCTTTGCAGCTGTTCGAACTCTCAACAAG                         GTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAA
genomic: GTTCATCTAAGCCCGTTCTGCGCTTTGCAGCTGTTCGAACTCTCAACAAGgtaattacga ... tgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatacctgtcaatcgcttgcactaagcattttgtttcctcgggttgttatgcagGTTGCACAGACCCATCCATTAGCAGTCACCAGCTGCAACATCGACATGGAAAGTCTCATTTCTGACCAAAACCGCAGCATTGCTACTCTTGCAATCACTA
                            attttgttt  TA-rich tract