Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccctcattcaccatccaattgcaactgcagctgctctggcattttccctcttcctgcagtaaatgtctgtgagatgcttttatatctaagtctagtatcgatcaactttgtgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAGGGGTCAAGCCCGTGGTCTCACCTGGTTTATCCCAGGCGACGACCCTACC

Basic information

species Physcomitrella patens
transcript PP1S9_115V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S9_115V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G110408_T01 (Zea mays), 3'ss of exon 3
gtacccctcattcaccatccaattgcaactgcagctgctctggcattttccctcttcctgcagtaaatgtctgtgagatgcttttata-tctaagtctagtatcgatcaactttgtgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAGGGGTCAAGCCCGTGGTCTCACCTGGTTTATCCCAGGCGACGACCCTACC
                 |  | ||   | || ||   || | | |       || |   | |   | |   ||  | ||   |   || ||| | ||   | | ||  ||| |  |    ||||| || |||||||| || |||||| | || |||||||||||| | || || ||||||||||| |||||||| || |||||||||||    || ||||| || 
---------------ttttgagtt---attggagtgccttttgtacgcgatttccttg-gtaaccattccatgccaaatttgtacctaatctcattcatttgtgga--aacctctt----tgcagAACTTTGACACCTGGCCATGATCCTGTCCAAAAGGTTACCTTAATCCCAAGGGGTCAAGCTCGTGGTCTTACATGGTTTATCCCGATGGATGACCCAACA

upper sequence: PP1S9_115V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G087598_T02 (Zea mays), 3'ss of exon 2
gtacccctcattcaccatccaattgcaactgcagctgctctggcattttccctcttcctg-cagtaaatgtctgtgagatgcttttatatctaagtctagtatcgatcaactttgtgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAGGGGTCAAGCCCGTGGTCTCACCTGGTTTATCCCAGGCGACGACCCTACC
               | |   |||   | || | ||||  |    | |  | | | | ||  |   | |   ||| | ||   | |  ||  |  | | |  | ||  ||  |  |    ||||| || ||||| || || |||||| | || |||||||||||| |  |||| ||||||||||| |||||||| || |||||||||||    || ||||| || 
---------------cttttgattt--attgga-ctgcctttttgtatgtcttttccttggtaaccattccatgtcaaatttatct-cattgatttgtggagtgga--aatctctt----tgcagAACTTTGACGCCTGGCCATGATCCTGTCCAAAAGGTTACCTTAGTTCCAAGGGGTCAAGCTCGTGGTCTTACATGGTTTATCCCGATGGATGACCCAACA
















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|162194020|gb|FC370195.1|FC370195
EST:     AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGG                         GACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
genomic: AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGGgtacccctca ... tgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
EST: gi|162194019|gb|FC370194.1|FC370194
EST:     AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGG                         GACC-TGNACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCA
genomic: AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGGgtacccctca ... tgtggtgcagGACCTTG-ACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCA
EST: gi|100447243|gb|CJ971542.1|CJ971542
EST:     AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGG                         GACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
genomic: AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGGgtacccctca ... tgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
EST: gi|100375562|gb|BY948913.1|BY948913
EST:     AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGG                         GACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
genomic: AAATCGAAGAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGGgtacccctca ... tgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
EST: gi|162268413|gb|FC444182.1|FC444182
EST:     GAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGG                         GACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG
genomic: GAGCCTCGTAGCTTATCATGAAGTTGGTCATGCCATTTGCGGgtacccctca ... tgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtgagatgcttttatatctaagtctagtatcgatcaactttgtgtggtgcagGACCTTGACACCAGGGCATGATGCGGTGCAAAAGGTTACCCTTATTCCCAGGGGTCAAGCCCGTGGTCTCACCTGGTTTATCCCAGGCGACGACCCTACC
            ttttatatctaagt  TA-rich tract