Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGTTGATGGAAAGAACGAAGAGATGTCAACTACAGAACTTTCCGGAGGAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAGgtaatcatatttgaggatgacttttcacgtgaagttggtgagttcttggctgcttatttagatgatttgtttaaatgtccacgtggcatttatgagatctttacttatgaattcttttgcaaaaacagtgactgtttgactgtttgactgttcgttgacatag
Basic information
species | Physcomitrella patens |
transcript | PP1S187_100V6.2 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S187_100V6.4 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA04G16340.1 (Glycine max), 5'ss of exon 9
TGTTGTTGATGGAAAGAACGAAGAGATGTCAACTACAGAACTTTCCGGAGGAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAGgtaatcatatttgaggatgacttttcacgtgaagttggtgagttcttggctgcttatttagatgatttgtttaaatgtccacgtggcatttatgagatctttacttatgaattcttttgcaaaaacagtgactgtttgactgtttgactgttcgttgacatag
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CATGGTTGAGGGAAATAATGAGGAGATTTCTACATCTGAACTATTTGGTGGAGCACGAATCCATTACATTTTTCAATCTATCTTTGTCAGAAGTTTAGAGgta--tataatccc------ttatttatgtatggatgttaaaaatatgcctgctctc----atgctacatttaaagatg-----ggaaataagcaggctataattaacgcattagcc----------------------------------------------
upper sequence: PP1S187_100V6.4 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA13G32940.1 (Glycine max), 5'ss of exon 9
---TGTTGTTGATGGAAAGAACGAAGAGATGTCAACTACAGAACTTTCCGGAGGAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAGgtaatcatatttgaggatgacttttcacgtgaagttggtgagttcttggctgcttatttagatgatttgtttaaatgtccacgtggcatttatgagatctttacttatgaattcttttgcaaaaacagtgactgtttgactgtttgactgttcgttgacatag
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CTCCATGCTTGAGGGAAAGAATGA---GATGTCTACATCCGAGCTATCTGGTGGAGCACGAATCCATTACATTTTTCAATCCATCTTTGTCAGAAGTTTAGAGgta------tataatgctgtatttacatatgataatgttaaaaatatgcctgttctc----atgctacacttgaat-taaagatggaaagtgaacaggctata---atgaatcc-------------------------------------------------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|162149763|gb|FC325878.1|FC325878EST: GAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAG GAAGTAGATCCATGCGATGATTTAAACAACGATGATATACGAACAGCTATA
genomic: GAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAGgtaatcatat ... gttgacatagGAAGTAGATCCATGCGATGATTTAAACAACGATGATATACGAACAGCTATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGTTGATGGAAAGAACGAAGAGATGTCAACTACAGAACTTTCCGGAGGAGCCCGTATCCATTATATTTTTCAATCTATTTTTGTGAGAAGTTTGGAGgtaatcatatttgaggatgacttttcacgtgaagttggtgagttcttggctgcttatttagatgatttgtttaaatgtccacgtggcatttatgagatctttacttatgaattcttttgcaaaaacagtgactgtttgactgtttgactgttcgttgacatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG