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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattatgttttgttcatcgaggtaatgaaattgtgaatatatgtagcttgagtgctttgtcttcatgtactcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT

Basic information

species Physcomitrella patens
transcript PP1S55_133V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S55_133V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA07G09410.1 (Glycine max), 3'ss of exon 7
----gattatgttttgttcatcgaggtaatgaaattgtgaatatatgtagcttgagtgctttgtcttcatgtactcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT
     || |  |||| || || |     ||   ||  | ||   ||  | | | |    |  |      |    |     |     || |  |    || |||||  || ||||||||| | ||       |     ||  |||| ||||| || |||||||| |||||||||||||||||||| ||||| ||||| |  || |
agaacatcaaattttatttatagc----atagtatattcaaaccatacaacatcatcattgagatactttaattttgaaatatggcttctttttggtgaaacagGCAGATTCTCCAATTCTTGGTCTCACAGTGATGGGTGAAGGTCGCATAGCTGTGTATGGGGACTCCAATTGTTTGGACAGCAGCCATATGGTTACTAATT

upper sequence: PP1S55_133V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA09G32400.1 (Glycine max), 3'ss of exon 7
-----------------------------------------------------------------------------gattatgttttgttcatcg----aggtaatgaaattgtga---atatatgtagcttgagtgctttgtcttcatgtactcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT
                                                                              ||    |||  || || |    |  |  |||||   |     || |   |   |    | |||  |  |  |||| | ||||||  | || |  |||     |||||  || ||||||||| | ||       |     ||  |||| ||||| || |||||||| |||||||||||||||||||| || || ||||| |  || |
gtgtgggatgacaccttaaaccatcacctatcataatatcttcaaaagaacaattagtttatgtgactttaaatgaatatcgaatttcatttatagcataatatcttgaaaccatattccatcttcatcattgagatacttattaattttgtaat-atggttttttttttggtgaa----acagGCAGATTCTCCAATTCTTGGTCTCACAGTGATGGGTGAAGGTCGCATAGCTGTGTATGGGGACTCCAATTGTTTGGACAGCAGTCATATGGTTACGAATT

upper sequence: PP1S55_133V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AT5G19660.1 (Arabidopsis thaliana), 3'ss of exon 7
--gattatgttttgttcatcgaggtaatgaaattgtgaatatatgtagcttgagtgctttgtcttcatgtactcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT
   || |        |  ||       |  || ||||  |     |  ||| | |   |||   | || |  |  || | ||| |     || |   ||||||  ||  || |  || | ||     ||||    ||  |||| ||  |||  || ||||| ||||| ||||||||||| |||||||||||||| | |||||
gtaatgagaaaccagttctctccact-tctaactgtgccttggattttcttaattaaattgcagtgatttgtttgtgat-aatgtggctgtgtt---tacagGAAGACCCTGCTGTTCTTGGGCTTTTGGAGATTGGTGAAGGTCGGGTTGGTGTATATGGAGACTCAAATTGTTTGGATAGTAGCCACATGGTCACCAACT

upper sequence: PP1S55_133V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv11s0016g03870.t01 (Vitis vinifera), 3'ss of exon 7
gattatgttttgttcatcgaggta-atgaaattgtgaatatatgtagcttgagtgctttgtcttcatgt-actcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT
   ||  | |  | | | ||   | |||  | |   | |  |  |    | |    ||  |     | | |   |||     |  | |  |||   || ||||  || ||||| ||| | ||     ||||    ||  | || || |||||||| ||||| |||||||| ||||||||||| ||||||||||| |   |||
--ctagttatgatcccttgaaaaacatgtcacttctattccacttcatgtaataatttccttggtgtttgaaatatgaacttttgtctgttgaggaatgcagGCAGACTCTCCCATTCTTGGCCTTCTGGAGTTGGGTGAGGGTCGTATTGCCGTTTATGGAGACTCCAACTGTTTGGACAGCAGCCACATGGTTACTCACT

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|162155651|gb|FC331264.1|FC331264
EST:     CCGGCGGTCGCTCTGGCATAACCTCATCACGCAGTTCTGTGCGAGCTCAG                         GTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCC
genomic: CCGGCGGTCGCTCTGGCATAACCTCATCACGCAGTTCTGTGCGAGCTCAGgtctccttcg ... atcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCC
EST: gi|162277578|gb|FC453521.1|FC453521
EST:     GTCGCTCTGGCATAACCTCATCACGCAGTTCTGTGCGAGCTCAG                         GTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCC
genomic: GTCGCTCTGGCATAACCTCATCACGCAGTTCTGTGCGAGCTCAGgtctccttcg ... atcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgagtgctttgtcttcatgtactcatggttaatattataatgatcgatacagGTGGAATCTCCAATTTTGGGAGCAGTGGATGCAGGAAAAGGACGCATTGCCGTGTATGGCGACTCCAATTGTTTGGACAGTAGCCACATGGTGAGCAACT
                             ggttaat  putative branch site (score: 4)
                               ttaatattataatgat  TA-rich tract