Sequence
atgc intronic sequence ATGC exonic sequence...gagtgttgttctgagagaagtcgtattagcagagatttagcagtaccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
Basic information
species | Physcomitrella patens |
transcript | PP1S245_98V6.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S245_98V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 7
---gagtgttgttctgagagaagtcgtattagcagagatttagcagtaccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
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cttgtctgtt-tactattgttaattgt-caattttctgtttactattgttaatttctatgtgttgagtattggtttgtgatattgatttgtgtg-tccaatagGCTGCCCCAGATGGATCTTTTGTTCTGCTGCATGGTTGCGCTCACAACCCAACTGGAATAGACCCAACTCCGGAACAATGGGAGAAAATTGCAGATGTCA
upper sequence: PP1S245_98V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 7
-----gagtgttgttctgagagaagtcgtattagcagagatttagcagtaccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
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gtcctgaat-ttatctatagagtttttttgtt--ctgaaaatgaacacttcactttcaattgattgtttatgccattatctattcatttttttttcaca--acagGCTGCTCCTGAAGGTTCTTTTGTTCTGCTACATGGTTGTGCTCACAACCCAACTGGAATAGACCCAACTCCTGAACAGTGGGAGAAAATTGCAGATGTCA
upper sequence: PP1S245_98V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: EFJ26197 (Selaginella moellendorffii), 3'ss of exon 5
gagtgttgttctgagagaagtcgtattagcagagatttagcagtaccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgt--tgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
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----------------------------------------------------------gtaaaatctctac-aagtttcgtcttatacgaggcgtgctttagGCTGCTCCCAATGGATCGGTCATATTGCTTCACGGCTGTGCGCACAACCCCACTGGCATCGACCCGACTCCCGAGCAATGGGAAGCAATCGCCGATGTTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|162254714|gb|FC431003.1|FC431003EST: ATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGAAGACATTCAG AACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCA
genomic: ATCCTAAGACCGTAGGGTTGGATTTCGAAGGCATGATTGAAGACATTCAGgtaacatatc ... gatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
ttacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtgttgttctgagagaagtcgtattagcagagatttagcagtaccagggccgtgaggttgttactttactaaggacaatattgtgtatgatgttgtagAACGCACCTGAAGGTTCAATTATCTTGCTGCATGGGTGTGCACACAACCCAACTGGCATAGACCCTACACCCGAGCAATGGGAGAAGATCGCCGACCTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA