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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTGAATACAGCTCGTTGGGTGGAAGAAGTACGAACGGAGCGTGGGAGTGATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagattaacatgcttaatttttcctgtcggagtgctaaataatccgtcttcatgaacatatgtcctaggtggattcagtaggattaaatgttctg...

Basic information

species Physcomitrella patens
transcript PP1S353_41V6.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S353_41V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os07g31370.1 (Oryza sativa), 5'ss of exon 4
TCCTGAATACAGCTCGTTGGGTGGAAGAAGTACGAACGGAGCGTGGGAGTGATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtaga--ttaacatgcttaatttttcctgtcggagtgctaaataatccgtcttcatgaacatatgtcctaggtggattcagtaggattaaatgttctg
|||| || ||  |    ||| | || |||||  |||| ||| | || ||||||||||| ||| |||| ||||| || || ||||||||| |||| ||||||||||| ||  | || |   ||  | ||| || | |   |      | |||   |||     |    | | ||  ||  ||   |      |  |  |||||
TCCTAAACACTTCAAAATGGATAGAGGAAGTTAGAACTGAGAGGGGCAGTGATGTTATCATTGTGCTGGTTGGGAACAAAACTGATCTTGTTGACAAGAGgtgagtggagttcaaaaaaattcttgttttctttagccctttcctgttatcttgcttatctgatgattttgct--gttaataatgatcctctttaccttctg

upper sequence: PP1S353_41V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA08G14390.1 (Glycine max), 5'ss of exon 4
TCCTGAATACAGCTCGTTGGGTGGAAGAAGTACGAACGGAGCGTGGGAGTGATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagattaacatgcttaatttttcctgtcggagtgctaaataatccgtcttcatgaacatatgtcctaggtgga---ttcagtaggattaaatgttctg--
| ||||| ||       ||||| || || || || || || ||||| ||||||||||||||| || | ||||| || || ||||||||| |||| || |||||||||   |||  || |  || |      |     |   ||| |||     |   | |||   | |  || | |||   || ||| |  || ||  ||||   
TTCTGAACACTAACAAGTGGGTTGAGGAGGTTCGTACAGAACGTGGCAGTGATGTTATTATTGTGTTGGTTGGAAACAAAACTGATCTTGTTGAAAAAAGgtgagta--ctaatttggtctatatgattctttaatttataaaaaaattaaattc--ttaactgttttgttaagcggaagttttagt-gttttgaaccttctatt

upper sequence: PP1S353_41V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA05G31200.1 (Glycine max), 5'ss of exon 4
TCCTGAATACAGCTCGTTGGGTGGAAGAAGTACGAACGGAGCGTGGGAGTGATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagattaacatgcttaatttttcctgtcggagtgctaaataatccgtcttcatgaacatatgtcctaggtggattcagtaggattaaatgttctg---
| ||||| ||       ||||| || || || || || || ||||| ||||||||||||||| |  | ||||| || || ||||||||| | |||||||||||||| | | |    | |||  |  | ||||   |    || | ||      ||| |     | |||  || | ||||    |||  ||   | || |    
TTCTGAACACTAACAAGTGGGTTGAGGAGGTTCGTACAGAACGTGGCAGTGATGTTATTATTGTATTGGTTGGAAACAAAACTGATCTTGTAGATAAGAGgtgagt-gctaatttggtttacatgattctgtttaatatatagaaaagttaaattcttattgttttgt--taagcggatgttttagtgttttttattatcata

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|100372220|gb|BY985492.1|BY985492
EST:     GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAG                         GCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT
genomic: GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagat ... aaatgtacagGCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT
EST: gi|162272435|gb|FC449061.1|FC449061
EST:     GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAG                         GCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT
genomic: GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagat ... aaatgtacagGCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT
EST: gi|18329546|gb|BJ161552.1|BJ161552
EST:     GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAG                         GCAAGTCTCAATAGAGGAAGGGGATGCC
genomic: GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagat ... aaatgtacagGCAAGTCTCAATAGAGGAAGGGGATGCC
EST: gi|162272434|gb|FC449060.1|FC449060
EST:     GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAG                         GCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT
genomic: GATGTTATTATTATGCTAGTTGGCAATAAGACTGATCTTCTTGATAAGAGgtgagtagat ... aaatgtacagGCAAGTCTCAATAGAGGAAGGGGATGCCAAGGCAAAGGAATTTGGAGTCAT