Sequence
atgc intronic sequence ATGC exonic sequenceGGGGATGGATTTTCATATTACACAACCTGGCTCATCCGTGGCTACTTCGCTTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAGgtacttgtgatccagattagatgtggttttttattcatctttttattagaagttaatcttttttatttgcttctttgtttattggaacttactactaaga...
Basic information
species | Physcomitrella patens |
transcript | PP1S18_235V6.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S18_235V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 5'ss of exon 10
GGGGATGGATTTTCATATTACACAACCTGGCTCATCCGTGGCTACTTCGCTTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAGgtacttgtgatccagattagatgtggttttttattcatctttttattagaagttaatcttttttatttgcttctttgtttattggaacttactactaaga
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TGGGATGGGTTTTCACATCACTCAACCAGGCTCATCAGTTGCAACCTCCCTGATTGATGGTGAAGCAAAACCAAAGCATGTTCTCTTGTTAGAAATCAAGgtcctattgaa--agctctcctcttcatgttgaacaaaacttcagtttggtgttttctcattccatttttattcttaaacag------------------
upper sequence: PP1S18_235V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 5'ss of exon 10
GGGGATGGATTTTCATATTACACAACCTGGCTCATCCGTGGCTACTTCGCTTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAGgtactt--gtgatccagattagatgtggttttttattcatctttttattagaagttaatcttttttatttgcttct--ttgtttattggaactt--actactaaga---------------
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TGGAATGGGCTTCCACATCACACAACCAGGATCTTCTGTGGCAACATCACTTATTGATGGGGAATCGAAGCCAAAACATGTTCTTCTCTTAGAAATCAAGgttcttcagcaaacaatctgaaatttcatcttcactttattcgtacttcattttctggtcttttttcctccttttcaatcaagcatgtaagcttgagtgacttaaaatatatgacttacagMapped 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|162184088|gb|FC358834.1|FC358834EST: TTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAG GGTAATGAGTACCGGCCAACAAAGGTCCCTCTGAAATCTGTCAGACCATTC
genomic: TTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAGgtacttgtga ... tttgctgcagGGTAATGAGTACCGGCCAACAAAGGTCCCTCTGAAATCTGTCAGACCATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGGATGGATTTTCATATTACACAACCTGGCTCATCCGTGGCTACTTCGCTTATTGATGGGGAATCTAAACCTAAGCATGTCCTCCTCTTAGAAATCAAGgtacttgtgatccagattagatgtggttttttattcatctttttattagaagttaatcttttttatttgcttctttgtttattggaacttactactaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC