Sequence
atgc intronic sequence ATGC exonic sequenceCTTTGTCGTTTGGAATCCTCCGGAATTTGCACAGGATTTGTTGCCCAAGTACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagtcactgtattctcgcttcttcacctcacttttcttcgatgggactggtattggcattggcgttaagctgggctgcaggagcagttggacgtactc...
Basic information
species | Physcomitrella patens |
transcript | PP1S42_157V6.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S42_157V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EDP02415 (Chlamydomonas reinhardtii), 5'ss of exon 3
CTTTGTCGTTTGGAATCCTCCGGAATTTGCACAGGATTTGTTGCCCAAGTACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagtcactg-tattctcgcttcttcacctcacttttcttcgat--gggactggtattggcattggcgttaagctgggctgcaggagcagttggacgtactc
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CTTCATTGTATGGAAGCCACCGGAGTTTGCGCGGGACTTGCTACCCAAACACTTCAAGCACAACAATTTCTCCAGCTTTGTGCGCCAGCTCAACACCTATgtaagtccccggcaaggttgcagcaccaagcttgctacctaggttcaaggaggggtgctgggaagagggggaatgcgg-ctggggcggccgccggggagcc--
upper sequence: PP1S42_157V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ28302 (Selaginella moellendorffii), 5'ss of exon 1
CTTTGTCGTTTGGAATCCTCCGGAATTTGCACAGGATTTGTTGCCCAAGTACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagt-cactgtattctcgcttcttca---cctcacttttcttcgatgggactggtattggcattggcgttaagctgggctgcaggagcagttggacgtactc
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CTTCGTGGTGTGGAACCCGCTGGATTTCTCGCGGGATTTGCTGCCCAAGTACTTCAAGCACAACAACTTCTCCAGCTTCGTCCGGCAGCTCAACACCTATgtgagttctctctcctctcccctgcgcaattcttccatttttccagctttgatttgatctgactttaccagcgcactgtgctctacag----------------
upper sequence: PP1S42_157V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ20325 (Selaginella moellendorffii), 5'ss of exon 1
CTTTGTCGTTTGGAATCCTCCGGAATTTGCACAGGATTTGTTGCCCAAGTACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagtcactgtattctcgcttcttcacctcacttttcttcgatgggactggtattggcattggcgttaagctgggctgcaggagcagttggacgtactc
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CTTCGTGGTGTGGAACCCGCTGGATTTCTCGCGGGATTTGCTGCCCAAGTACTTCAAGCACAACAACTTCTCCAGCTTCGTCCGGCAGCTCAACACCTATgtgagtt------ctctctcctctcccctgcgcaattcttccatttttccagctttgattttatc--tgactt----taccagcgcactgtgctctacagMapped 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|67695383|gb|BJ955616.1|BJ955616EST: ACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTAC GTCTTGAGGTTTCCAACCGAAGATGAAATTGGGTTCATAGCAAGG
genomic: ACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagtcact ... catgtagcagGTCTTGAGGTTTCCAACCGAAGATGAAATTGGGTTCATAGCAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTGTCGTTTGGAATCCTCCGGAATTTGCACAGGATTTGTTGCCCAAGTACTTCAAGCACAACAATTTTTCCAGCTTCGTCCGGCAGCTCAACACTTACgtaagtcactgtattctcgcttcttcacctcacttttcttcgatgggactggtattggcattggcgttaagctgggctgcaggagcagttggacgtactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA