Sequence
atgc intronic sequence ATGC exonic sequence...catgaaatcatattgttttcatgagtttgtgaatattcacatggaggggcttgaaacatttgtcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT
Basic information
species | Physcomitrella patens |
transcript | PP1S72_260V6.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S72_260V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 2
--catgaaatcatattgttttcatgagtttg---tgaatattcacatggaggggcttga-aacatttg-tcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT------
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gttagcaagtttcagtccttaattgcacttaccatcaactttaatcccaatcaattttatggtatttgaccaacattatttcttttatgcct---cagATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA
upper sequence: PP1S72_260V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 2
catgaaatcatattgttttcatgagtttgtgaatattcacatggaggggcttgaaacatttgtcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT------
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---------------------------------------gagtgcgtgttccgagagatttcttcttttctaagaag--attttacttCAGATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAG
upper sequence: PP1S72_260V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ33693 (Selaginella moellendorffii), 3'ss of exon 2
catgaaatcatattgttttcatgagtttgtgaatattcacatggaggggcttgaaacatttgtcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT------------
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----------------------------------gtagagtgcgagtgttccgagagatttcttcttttctaagaag--attttacttcagATTTTGCGGCAACTAAAGCACGAGAACATTATAGAAATGCTGGATGCATTTGAAAGCCCACAGGAGTTTTGTGTCGTGACAGAATTTGCACAGGCAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggggcttgaaacatttgtcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT
aatttgttaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgaaatcatattgttttcatgagtttgtgaatattcacatggaggggcttgaaacatttgtcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT
- - - - - - - - - - - - - - - - - - -cacatgg