Sequence
atgc intronic sequence ATGC exonic sequence...tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC
Basic information
species | Physcomitrella patens |
transcript | PP1S87_48V6.4 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S87_48V6.4 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC
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---gttggtattactcggagataggcacatgctaatttct-----atttctgtatggtgccattggaataagtacaaagatcatttatg----ttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
upper sequence: PP1S87_48V6.4 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC
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---gttggtattacacggagataggcacatgctaattact-----atttcggtacggtgccctttgaataaatacaaagatgatt-atg----ttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC
ccctcac CT-rich tract
ttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgct