Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttccttattgtgtttgtgtgtttgaagtccgatatagtgttctttgttctgctgcgcaggatcttgtcatcttacaatccatacaccactaattttcactgactcgcttttttgcagATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGGTTGTATCTGCTATCGGGATTGCTTCAATCAAAGGCACTCGAGACCCCAG

Basic information

species Physcomitrella patens
transcript PP1S105_42V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S105_42V6.2 (Physcomitrella patens), 3'ss of exon 8
lower sequence: GRMZM2G075900_T01 (Zea mays), 3'ss of exon 8
gtaagtttccttattgtgtttgtgtgtttgaagtccgatatagtgttctttgttctgctgcgcaggatcttgtcatcttacaatccatacaccactaattttcactgactcgcttttttgcagATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGGTTGTATCTGCTATCGGGATTGCTTCAATCAAAGGCACTCGAGACCCCAG
    | ||  || |||   |||||| ||||  || | ||          | |  |   ||         | |   | |||   ||||||    |  |  |||   |        || |||||||||| ||||| |||||  | ||||| || ||||| ||||||||||||||||| || ||  |  |||| |||   ||||||| ||| || || ||| |  |
----gctttgttgttgctgttgtgtttttg--gtacaatggcacacatatcgcacctttgtaa------tcgctctattatggtccata----atcagctttgttta-------ttattgcagATCCGTCTGGCTTTATTTTGTTTCCTCTTGTTGTGCATTCATTTGATTTGGTGGTGTCATCAGTCGGAATTCTCTCAATCAGAGGAACACGTGACTCTGG
















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|162189733|gb|FC366787.1|FC366787
EST:     CAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACG                         ATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGACTTGG
genomic: CAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACGgtaagtttcc ... ttttttgcagATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGG
EST: gi|162256270|gb|FC432176.1|FC432176
EST:     CAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACG                         ATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGG
genomic: CAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACGgtaagtttcc ... ttttttgcagATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtcatcttacaatccatacaccactaattttcactgactcgcttttttgcagATCCATCTGGGTTTATCCTCTTTCCCCTGGTTGTACATTCATTTGATTTGGTTGTATCTGCTATCGGGATTGCTTCAATCAAAGGCACTCGAGACCCCAG
                                  cactgac  putative branch site (score: 2)
                                        ctcgctttttt  CT-rich tract
                         actaatttt  TA-rich tract