Sequence
atgc intronic sequence ATGC exonic sequenceTGTAACCAGCACAATGAGCAGCCGTGCCAGCCGAACGATTTATGTCGGAAACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAGgtaatggaatcagttttgttcgaggatgtttcgtaattcccttgctgtgaatgttcagcaatattgtgtcacaagtgctattgcctgaaattttctatggactctgtatgtctgcgggcgcgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S173_12V6.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S173_12V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ19466 (Selaginella moellendorffii), 5'ss of exon 1
TGTAACCAGCACAATGAGCAGCCGTGCCAGCCGAACGATTTATGTCGGAAACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAGgtaatg--gaatcagttttgttcgaggatgtttcgtaattcccttgctgtgaatgttcagcaatattgtgtcacaagtgctattgcctgaaattttctatggactctgtatgtctgcgggcgcgcag
|| |||||||||| ||||||||||| ||||| || || || ||||| ||||| |||||||| ||| | || |||||||| | | | | |||| || || | | || | |
----------------------CGGTCCAGCCGAACTATTTATGTCGGGAACCTCCCGGGAGACGTGAGAGAGCGGGAAATTGACGACTTGTTTCACAAGgtattctcgttttcggtttgctc-agctcaacccacatatcttgtttcgcag---------------------------------------------------------------------------
upper sequence: PP1S173_12V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ21034 (Selaginella moellendorffii), 5'ss of exon 1
TGTAACCAGCACAATGAGCAGCCGTGCCAGCCGAACGATTTATGTCGGAAACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAGgtaatg--gaatcagttttgttcgaggatgtttcgtaattcccttgctgtgaatgttcagcaatattgtgtcacaagtgctattgcctgaaattttctatggactctgtatgtctgcgggcgcgcag
| ||||| |||||||||| ||||||||||| ||||| || || || ||||| ||||| |||||||| ||| | || |||||||| | | | | |||| ||| | | | || | |
----------------ATGAGCCGGTCCAGCCGAACTATTTATGTCGGGAACCTCCCGGGAGACGTGAGAGAGCGGGAAATTGACGACTTGTTTCACAAGgtattctcgttttcggtttgctcg-gctcaacccacatatcttgtttcgcag---------------------------------------------------------------------------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|67574652|gb|BJ947476.1|BJ947476EST: ACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAG TATGGACGAATTGTGGATATCGACTTGAAGTTACCTCCTCGTCCTCCTGGT
genomic: ACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAGgtaatggaat ... gggcgcgcagTATGGACGAATTGTGGATATCGACTTGAAGTTACCTCCTCGTCCTCCTGGT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTAACCAGCACAATGAGCAGCCGTGCCAGCCGAACGATTTATGTCGGAAACCTTCCCGGTGATGTGAGGGAGCGAGAAATTGAAGACATTTTCTACAAGgtaatggaatcagttttgttcgaggatgtttcgtaattcccttgctgtgaatgttcagcaatattgtgtcacaagtgctattgcctgaaattttctatggactctgtatgtctgcgggcgcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA