Sequence
atgc intronic sequence ATGC exonic sequenceCGCACCCAAGGGCGCTAAGACCAACTGGATCATGCACGAGTACCGCCTGGAGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAGgtttgttcgcgctgcccttctgtcacgcgcagtatttctgtatcaaacttctcactaggtttgtactgctctgtcaatttgaaagatgatgtgcaccaacctgtgagtatcaaagaaaggcatagaataacagctgttaactgctgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S259_58V6.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S259_58V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ37734 (Selaginella moellendorffii), 5'ss of exon 2
---------CGCACCCAAGGGCGCTAAGACCAACTGGATCATGCACGAGTACCGCCTGGAGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAGgtttgttcgcgctg-cccttctgtcacgcgcagtatttctgtatcaaacttctcactaggtttgtactgctctgtcaatttgaaagatgatgtgcaccaacctgtgagtatcaaagaaaggcatagaataacagctgttaactgctgcag
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CCGAGGGAGAGCTCCCAAGGGCGTCAAGACCAACTGGATCATGCACGAGTACAGGCTCGAGGGCGAGGCGGCC--TTCCTTCACAACTCAAGAACATCCAAGgtgatcactttgctcactcaaatccttctttttctct-----tccatagattgcagtgcttgcggtggctagatt--tcttgtgctcagggcatagatttccatctc--------------------------------------------------
upper sequence: PP1S259_58V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ32111 (Selaginella moellendorffii), 5'ss of exon 2
---------CGCACCCAAGGGCGCTAAGACCAACTGGATCATGCACGAGTACCGCCTGGAGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAGgtttgttcgcgctgcccttctgtcacgcgcagtatttctgtatcaaacttctcactaggtttgtactgctctgtcaatttgaaagatgatgtgcaccaacctgtgagtatcaaagaaaggcatagaataacagctgttaactgctgcag
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CCGAGGGAGAGCTCCCAAGGGCGTCAAGACCAACTGGATCATGCACGAGTACAGGCTCGAGGGCGAGGCGGCCTTCCTCCACAAC--TCAAGAACATCCAAGgtgatcactttgctcactcaaatccttcattttctct----tccatagattgcagtgcttgcggtggctagatt--tcttgtgctcagggcatagatttccatctc--------------------------------------------------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|162155137|gb|FC330931.1|FC330931EST: AGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAG AATCACGAATGGGTAGTATGCCGTGTCTTTCAGAAGACGGTTGGCAACAAA
genomic: AGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAGgtttgttcgc ... actgctgcagAATCACGAATGGGTAGTATGCCGTGTCTTTCAGAAGACGGTTGGCAACAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCACCCAAGGGCGCTAAGACCAACTGGATCATGCACGAGTACCGCCTGGAGAATGACTTGAGTAATCACCTAAGCAACCATGAATCTCACCAATCCAAGgtttgttcgcgctgcccttctgtcacgcgcagtatttctgtatcaaacttctcactaggtttgtactgctctgtcaatttgaaagatgatgtgcaccaacctgtgagtatcaaagaaaggcatagaataacagctgttaactgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA