Sequence
atgc intronic sequence ATGC exonic sequence...ttggataatcatctgttaggacctagttctactattaaatattctatgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
Basic information
species | Physcomitrella patens |
transcript | PP1S311_38V6.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S311_38V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA18G15240.1 (Glycine max), 3'ss of exon 1
--ttggataatcatctgttaggacctagttct-actattaaatattctatgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
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ccctacatgtacacattaaaggatcttatgcttaattttctttccacaagggaaaacatatgtttctaattttcctc---ctttcatttatgtgtgggtttagAAATGCATACAACATGGTGCTTCACAAATTTGGTGAGAAGCTCTACTCAGGGCTGGTTGCAACCATGACTGGACATCTCAAAGATATAGCTCAATCTGTT
upper sequence: PP1S311_38V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv14s0108g00490.t01 (Vitis vinifera), 3'ss of exon 2
ttggataatcatctgttaggacctagtt--ctactattaaatattctatgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
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-ttgtctattttttattatttgtgaattgcccacccgtgaac-tgctacttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
aaactaatttagtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggataatcatctgttaggacctagttctactattaaatattctatgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT