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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatcaaactccagtcgcatacaattcacccttatgttctttccaacgtgcttcttgatctagattctaatctaagtgtatttgtcttctatggctgtggcgcattaacatttcagGTAATCACAAAAACATCTTCAATGATGCCGGTGTTCCATGGAAAGAGTACCGCTACTTCGATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGA

Basic information

species Physcomitrella patens
transcript PP1S245_98V6.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S245_98V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 6
gtatggatcaaactccagtcgcatacaattcacccttatgttctttccaacgtgcttcttgatctagattctaatctaagtgtatttgtcttctatggctgtggcg-cattaacattt--cagGTAATCACAAAAACATCTTCAATGATGCCGGTGTTCCATGGAAAGAGTACCGCTACTTCGATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGA
                                    ||||   ||| |  | | | |  | | || | |  | || |  || ||      |   |   |  |||   |||||   | |   |||||||||||| || || |||||||||||  |||| ||||||   |||||||| || |  ||||| ||||| || ||||||||||| || |||||||||||
-----------------------------------gtatgcattttactgcttccctgattaacttggtcgtgatatttgt-tagggagttcaaacatccctggtaacattattgtcttgtagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGGTTGGATTTTGAGGGCATGATTGA

upper sequence: PP1S245_98V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 7
gtatggatcaaactccagtcgcatacaattcacccttatgttctttccaacgtgcttcttgatctagattctaatctaagtgtatttgtcttctatggctgtggcgcattaacatttcagGTAATCACAAAAACATCTTCAATGATGCCGGTGTTCCATGGAAAGAGTACCGCTACTTCGATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGA
                                     ||  ||||  | ||   | | ||    | ||||    |  |  | ||   | |||      ||||  |  | || ||  |||||||||||||| || |||||||||||||||   ||||| |||   || ||||||||||  ||||| || ||  | || |||||||| || || ||||| | 
---------------------------------gtacattgtcttgaccacaaacatttttgagt-gatttggtttcatatttaaccgcctttatcaactgta-caaaataccacatcagGTAATCACAAGAATATCTTCAATGATGCCAAAGTTCCGTGGTCCGAATACCGCTACTATGATCCAAAAACAATTGGTTTGGATTTTGAGGGAATGATAGC
















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|100360663|gb|BY965570.1|BY965570
EST:     ACAACGTTACTTTCCTGGCAC-ACGGGTTACATCTCTTCTCCGACTTGGG                         -TAATCACAAAAACATCTTCAATGATGCGGGTG
genomic: ACAACGTTACTTCCCTGGCACCACGGTTTACATCTCTTCTCCGACCTGGGgtatggatca ... aacatttcagGTAATCACAAAAACATCTTCAATGATGCCGGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattctaatctaagtgtatttgtcttctatggctgtggcgcattaacatttcagGTAATCACAAAAACATCTTCAATGATGCCGGTGTTCCATGGAAAGAGTACCGCTACTTCGATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGA
                                         cattaac  putative branch site (score: 2)
                                          attaacattt  TA-rich tract