Sequence
atgc intronic sequence ATGC exonic sequenceTCGCGACAGTAATAGGAGAAGGTGGCTCTGGAGGTGCACTTGCCATTGGATGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAGgtgcaattgcaacccaaatgagattctaactgcttttattctcgagtctttaaacatgttgcaaatctctcattcttgcttataagagtggactgattgt...
Basic information
species | Physcomitrella patens |
transcript | PP1S234_46V6.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S234_46V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: EFJ27034 (Selaginella moellendorffii), 5'ss of exon 4
TCGCGACAGTAATAGGAGAAGGTGGCTCTGGAGGTGCACTTGCCATTGGATGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAGgtgcaattgcaacccaaatgagat-tctaactgctttta--ttctcgagtctttaaacatgttgcaaatctctcattcttgcttataagagtggactgattgt
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TAACAACCGTCATTGGAGAAGGTGGCTCTGGTGGTGCACTAGCAATTGGATGCGGCAACAAGATGCTTATGATGGAAAACTCCGTCTATTACGTGGCCAGgt----ttgtacactttctgggacctcttccggtttctaacttttcccttcctcgtacag-------------------------------------------
upper sequence: PP1S234_46V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: EFJ05885 (Selaginella moellendorffii), 5'ss of exon 6
TCGCGACAGTAATAGGAGAAGGTGGCTCTGGAGGTGCACTTGCCATTGGATGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAGgtgcaattgcaacccaaatgagattctaactgctttta--ttctcgagtctttaaacatgttgcaaatctctcattcttgcttataagagtggactgattgt
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TAACAACCGTCATTGGAGAAGGTGGCTCTGGTGGTGCACTAGCAATTGGATGTGGCAACAAGATGCTTATGATGGAAAACTCCGTCTATTACGTGGCCAGgtttgtacactttctg---gaacctcttccggtttctaacttttcccttcctcgtacag-------------------------------------------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|67507684|gb|BJ940564.1|BJ940564EST: TGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAG TCCGGAAGCATGCGCTGCTATTCTCTGGAAGACTGCTGCGGCTGCTCCTAA
genomic: TGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAGgtgcaattgc ... tttgtcacagTCCGGAAGCATGCGCTGCTATTCTCTGGAAGACTGCTGCGGCTGCTCCTAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGCGACAGTAATAGGAGAAGGTGGCTCTGGAGGTGCACTTGCCATTGGATGTGGTAATAGGATGTTGATGCTCGAGAATGCTGTCTACTATGTAGCAAGgtgcaattgcaacccaaatgagattctaactgcttttattctcgagtctttaaacatgttgcaaatctctcattcttgcttataagagtggactgattgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG