Sequence
atgc intronic sequence ATGC exonic sequence...ctgcatggcattccattgttagaacaggtcaaatggttgcatagatatttaagatttgtaatcattttttatttcttattccaattttattacaatgcagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
Basic information
species | Physcomitrella patens |
transcript | PP1S145_26V6.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 4
ctgcatggcattccattgttagaa--caggtcaaatggttgcatagatatttaagat-ttgtaatcattttttatttcttattccaa---ttttattacaatg-cagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
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-----tttagtttttgtattgggttttggctctcaaaattctagtcttactggtgatattgcaa--aatcttgatgtataacttcaaatattccatcacattttcagTGACCAGCTACCTGTCAGTACAAAGTTTGATATGCGTAGCGATCCTGGCGTTGTAAGGAATTATGGTCGGCTCTTGCTGGAGATGGCTTCTGCTGTGCCA
upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 7
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 3'ss of exon 5
ctgcatggcattccattgt-tagaacaggtcaaatggttgcatagatatttaagatttgtaatcattttttatttctta----ttccaattttattacaatgcagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
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-----------------gtatgtggtatataaaaagaatcc-tgaacacttaacttattttttaattttatatgtcttgacattattggttgttttctttttcagTGATCAGCTTCCTGTTAGCACCAAATTTGACATGAGAAGTGATCCTGGTGTTGTGAGGAATTACGGAAAGCTTTTGGTAGAGATGGTATCTATTGTTCCT
upper sequence: PP1S145_26V6.3 (Physcomitrella patens), 3'ss of exon 7
lower sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------------------ctgcatggcattccattgttagaacaggtcaaatg-gttgcatagatatttaagatttgtaatcattttttatttcttatt----ccaattttattacaatgcagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
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gtaaggggttaaattaaggtttgattcttttttctattcaataatttgggtgtcttagtttctattactacaacctttcttattaatct-tagttgaaagacattacttccattaggtcatttttatttatttatttttgtttctttctccttattgaattcaatttctttttatttcagTGACCAGCTTCCTGTGAGTACAAAATTTGATATGAGAAGTGATCCTGGTGTTGTAAGGAATTATGGGAGGCTCCTGCTGGAGATGGTGTCTGTTGTTCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttaagatttgtaatcattttttatttcttattccaattttattacaatgcagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
ttttatt CT-rich tract
atttgtaatcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcatggcattccattgttagaacaggtcaaatggttgcatagatatttaagatttgtaatcattttttatttcttattccaattttattacaatgcagTGACCAGCTGCCTGTCAGCACGAAATTTGATATGCGGAGTGATCCTGGAGTTGTTCGCAATTACGGTCGTCTGCTACTAGAGATGGTCACTGCTGTTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT