Sequence
atgc intronic sequence ATGC exonic sequenceGCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTGgtatgaaattttgttgaagaaacgtcggattctgtgaaatcatttagaattagattcgtcttgacaaccccattgctctttctgtctatattggagatgacgccttgaaatactgaaatgctagtatctgagaaaaactttttaattgatgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S81_165V6.4 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S81_165V6.3 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 8
GCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTGgtatg-aaattttgttgaagaaacgtcggattctgtgaaatcatttagaattagattcgtcttgacaaccccattgctc-tttctgtctatattggagatgacgccttgaaatactgaaatgctagtatctgagaaaaactttttaattgatgcag
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GCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTGGTGTTGTAAAGCTAATGGGACGTTACAGTGgtatgcatactttgc-----atttgcttgatatcttttaggcatcta--attcagatgattgaaacccttttatgtttcacttttagctctcttcaatcgggcttct-------------------------------------------------
upper sequence: PP1S81_165V6.3 (Physcomitrella patens), 5'ss of exon 10
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 5'ss of exon 9
GCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTGgta---tgaaattttgttgaagaaacgtcggattctgtgaaatcatttagaattagattcgtcttgacaaccccattgctctttctgtctatattggagatgacgccttgaaata--ctgaaatgctagtatctgagaaaaactttttaa--ttgatgcag--
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GCTGTTGAAGAAGCACAGCGTGCCATTAATGCGGCACATGTTGAATCTGAAAGTATTGAGAATGGTATTGGCATGGTGAAGCTAATGGGACGCTACAGTGgtaacttttacatttatatttgatat-tcagatttacttaaaa-gtttttaactgtgtaagtgaagtgaggaacgttgaattattggatt-tgttgtgcaagcctcttccaagtaatcttgatttccaatttttcctacaaagtatttggatttgatgtgcagMapped 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|162199151|gb|FC374597.1|FC374597EST: GAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTG GTTACATTGCTTTGTATGCCACTCTTGCAAGTCGTGATGTG
genomic: GAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTGgtatgaaatt ... attgatgcagGTTACATTGCTTTGTATGCCACTCTTGCAAGTCGTGATGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGGATTGGTCAAGCTTATGGGACGATACAGTGgtatgaaattttgttgaagaaacgtcggattctgtgaaatcatttagaattagattcgtcttgacaaccccattgctctttctgtctatattggagatgacgccttgaaatactgaaatgctagtatctgagaaaaactttttaattgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT