Sequence
atgc intronic sequence ATGC exonic sequenceAGTTCACCAGCAAAGTAGAGGGGAAGATGGGTTATGAGGACTTCGTGTGGTTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtacacctgatgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S147_62V6.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 5'ss of exon 9
AGTTCACCAGCAAAGTAGAGGGGAAGATGGGTTATGAGGACTTCGTGTGGTTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtacacctgatgcag
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AGTTCACTAACAAAGTTGAAGGGAAGATGGGGTATGAGGACTTTGTCTATTTCATTCTTGCGGAAGAAGATAAATCGTCAGTGCCTAGCCTAGAATATTGgtaagttgtgatagaagggtccgaaagt--tgcagacagataccattttaagtc--ttttatctgacacaagt-atacgttg---gactag------------------------------------------------------------------------------------------------------
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 8
AGTTCACCAGCAAAGTAGAGGGGAAGATGGGTTATGAGGACTTCGTGTGGTTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtacacctgatgcag
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AGTTCACTAGCAAAGTTGAAGGGAAGATGGGGTATGAAGACTTTGTCTATTTCATTCTTGCGGAAGAAGATAAATCGTCAGTGCCTAGCCTAGAATATTGgtaagttgtgatataagggtccgaaagt--tgcagacagatacgattttaagtctttttatctga-cacaagt-atacgttg---gactag------------------------------------------------------------------------------------------------------
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ32791 (Selaginella moellendorffii), 5'ss of exon 9
AGTTCACCAGCAAAGTAGAGGGGAAGATGGGTTATGAGGACTTCGTGTGGTTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtacacctgatgcag
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AGTTTACGAGTTCCGTGGAAGGAAAGATGGGTTACGAGGACTTTGTGTGGTTCATTTTATCGGAGGAGGACAAAACGTCTGAACCAAGCTTGGAGTACTGgtaagcgacgtcttgaatcttctgtaagatcgatcgattgacagatcgcgacttccag---------------------------------------------------------------------------------------------------------------------------------------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|162193203|gb|FC369963.1|FC369963EST: TTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTG GTTCAAATGTGTGGACCTGGATTGTGATGGTGTGATAACACCAAATGAGAT
genomic: TTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacct ... cctgatgcagGTTCAAATGTGTGGACCTGGATTGTGATGGTGTGATAACACCAAATGAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTCACCAGCAAAGTAGAGGGGAAGATGGGTTATGAGGACTTCGTGTGGTTCATTCTTTCAGAAGAGGACAAGTCTTCAGAACCTAGCTTAGAATACTGgtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtacacctgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA