Sequence
atgc intronic sequence ATGC exonic sequenceCGTCAGCTACGCAGAAGGGGTCGTTGAATCGCTTTGGTCTATCGACCAATACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAGgtcagtccgtacccctgccagcatcaccacattcttctttgtattttctggtcacaaaaatattcaggtcaactgagctcttaaatacctatatgttatt...
Basic information
species | Physcomitrella patens |
transcript | PP1S96_56V6.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S96_56V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT2G01110.1 (Arabidopsis thaliana), 5'ss of exon 3
CGTCAGCTACGCAGAAGGGGTCGTTGAATCGCTTTGGTCTATCGACCAATACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAGgtcagtccgtacccctgccagcatcaccacattcttctttgtatt-ttctggtcacaaaaatattcaggtcaactgagctcttaaatacctatatgttatt
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TGTGAATTACGCTGAAGGTGTGGTAGAATCTCTGTGGTCTATCGACCAGTACTTTGAGTTTGTACTAGTGCTTATGTTCAGCACAGGCCTTTCTTTCCAGgta----tgtggcaatatga-tattat-acatgttcctaaacgttgctttagccatcttcacctggaattttggctgcttcttgttggtttacag------
upper sequence: PP1S96_56V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: Vv01s0011g04410.t01 (Vitis vinifera), 5'ss of exon 3
CGTCAGCTACGCAGAAGGGGTCGTTGAATCGCTTTGGTCTATCGACCAATACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAGgtcag---tccgtacccctgccagcatcaccaca---ttcttctttgtattttctggtcaca---aaaatattcaggtcaactgagctcttaaatacctatatgttatt
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TGTTAATTACGCAGAAGGAGCTGTGGAATCTTTGTGGTCTATTGATCAATACTTTGAGTTTGTCTTTGTGCTCATGTTCAGCACTGGTTTGTCTTTTCAGgtaagatatctttatttcatcctttctgtccacaggggtgtcacttatatttgctgtttagatttgcaatattgatattta-tatgaaattaaatcattga--------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|162163168|gb|FC340222.1|FC340222EST: ACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAG GTGCCCATCATACAACTACTACTGGGCCAGACAGGGCTGGTATCAGGGGAC
genomic: ACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAGgtcagtccgt ... atctgtgcagGTGCCCATCATACAACTACTACTGGGCCAGACAGGGCTGGTATCAGGGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTCAGCTACGCAGAAGGGGTCGTTGAATCGCTTTGGTCTATCGACCAATACTTCGAGTTTGTGTTAGTGCTCATGTTCAGTACTGGGCTGTCTTTCCAGgtcagtccgtacccctgccagcatcaccacattcttctttgtattttctggtcacaaaaatattcaggtcaactgagctcttaaatacctatatgttatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaata