Sequence
atgc intronic sequence ATGC exonic sequence...catttgtgtcctgaagtttacaatggggtacggaggaatctttgaaaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGC
Basic information
species | Physcomitrella patens |
transcript | PP1S263_22V6.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S263_22V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 3
catttgtgtcctgaagtttacaatggggtacggaggaatctttgaaaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGC
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-------------------gtaatcttcgccgtttatatcctt--acattgtttcttctctgagtcatattctgatcatctatcgattttcc-tatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
upper sequence: PP1S263_22V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 3
-catttgtg---tcctgaagtttacaatggggtacggaggaatctttgaaaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGC
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tttttcgtagatttctgatgatc-ctttgatatttgggagttcctttcagatagattctcttcat-attcttattgtgctgatgaaaaatg--tacttgtccagCAACTGGTAATATACGAGACATCTGCTTCAGAATTGGATATAATTCGAGATATTTCTCGTACCTTCCCATCACATGTTTTCTTCCAGCAGAGACATGGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGC
tctcttg CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttgtgtcctgaagtttacaatggggtacggaggaatctttgaaaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG