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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggcttcggtcgttcttttcatagcagtttcctcggtcatggaaaatatttagtgggtggccatcgtacttcaattcttccttcgcattggtacatttttaattttttttttatcatagtgattcatgccaactgaatgtgggcgtattactctatttttgaacagGTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGAATGGATATAATGGGTCCTGCGAAAAGTTCAAGTGGTTTTAAAGTCAACG

Basic information

species Physcomitrella patens
transcript PP1S141_116V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S141_116V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: LOC_Os10g40555.1 (Oryza sativa), 3'ss of exon 3
gtgaggcttcggtcgttcttttcatagcagtttcctcggtcatggaaaatatttagtgggtggccatcgtacttcaattcttccttcgcattggtacatttttaattttttttttatcatagtgattcatgccaactgaatgtgggcgtattactctatttttgaacagGTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGAATGGATATAATGGGTCCTGCGAAAAGTTCAAGTGGTTTTAA-AGTCAACG--
                                                    | ||    |     ||  |  | || |  |||  |    || ||   ||||   |||||   | |  |  ||| ||   |        | || | || ||  ||| |        |||| |  || |||||| ||||  | ||| |||| ||||| |||||||||||||||||||| ||||| ||||  |  |  ||   || ||  |   |||| |   
---------------------------------------------------gtaaggaatttatgttcacatgtaaaatactccccc----tgctaaccttttgcatttttcactctt-tgttgactctctct-------tatgtgtgttttgttcttt--------agGTTTTTGACTTTGTGAAACTAACTGAACTGTATTACGCTGGAAGTCATGGAATGGATATCATGGGGCCTGTTAGGAAGTC---TGATTCGAGTGGTCAGCATG

upper sequence: PP1S141_116V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G178546_T01 (Zea mays), 3'ss of exon 4
gtgaggcttcggtcgttcttttcatagcagtttcctcggtcatggaaaatatttagtgggtggccatcgtacttcaattcttccttcgcattggtacatttttaattttttttttatcatagtgattcatgccaactgaatgtgggcgtattactctatttttgaacagGTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGAATGGATATAATGGGTCCTGCGAAAAGTTCAAGTGGTTTTAAAGTCAACG
                                                                                              |||| | ||| | ||  ||  |  |   | | || |  || |    ||      | | | | | | |||    |||| |  || |||||| | ||    |||||||||||||| ||||| ||||||||||| |||||||| ||||  |  |   | | ||  |  || | |   |
-------------------------------------------------------------------------------------------gtatacagtgttattgttcattgcacaa--ataactcctatcagcattttgcatttttctcattgtttcttt---tagGTTTTTGACTTTGTGAAGCTAAATGAATTGTACTACGCTGGAAGCCATGGAATGGACATAATGGGCCCTGTTAGGAAGACTACTGACTCCAATGGCGTGG
















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|18365677|gb|BJ197754.1|BJ197754
EST:     TGGCAACTTATTTTCCAACAGCAATTATCAGTGGAAGAGCTCGCCCGAAG                         GTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGA
genomic: TGGCAACTTATTTTCCAACAGCAATTATCAGTGGAAGAGCTCGCCCGAAGgtgaggcttc ... ttttgaacagGTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcatagtgattcatgccaactgaatgtgggcgtattactctatttttgaacagGTATACGATTTTGTGCAACTGTCGGAATTGTACTACGCGGGAAGTCATGGAATGGATATAATGGGTCCTGCGAAAAGTTCAAGTGGTTTTAAAGTCAACG
                                       ctctattttt  CT-rich tract
                                  tattactctattttt  TA-rich tract