Sequence
atgc intronic sequence ATGC exonic sequenceAGACATTGGCCGCTTTCATGAAGACGGATGTATAGAAATTATTGATCGTAAGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAGgtgctgctgtaatctatacctcacgttactgtcctcatgctgtcaagtttttttgtttcactgtggagtatgcttcttatgacaacctggtgttggaacag
Basic information
species | Physcomitrella patens |
transcript | PP1S475_12V6.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S475_12V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA13G11700.1 (Glycine max), 5'ss of exon 10
AGACATTGGCCGCTTTCATGAAGACGGATGTATAGAAATTATTGATCGTAAGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAGgtgctgctgtaatctatacctcacgttact--gtcctcatgctgtca--agtttttttgtttcactg--tggagtatgcttcttatga-caacctggtgttggaacag
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CGATATTGGGCAATTCCATCCTGATGGATGTCTTGAAATCATAGATAGGAAGAAAGATATTGTCAAACTTCAACATGGAGAATATATATCTCTTGGAAAGgtaaagcaataccttgttcattctggaatctggatgaagtgctgacacaagatctgcagtaacattttctagggcttacatcatgttttcattatgacttgcttgcag
upper sequence: PP1S475_12V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA20G07280.1 (Glycine max), 5'ss of exon 9
AGACATTGGCCGCTTTCATGAAGACGGATGTATAGAAATTATTGATCGTAAGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAGgtgctgctgtaatctatacctcacgttactgtcctcatgctgtcaagtttttttgtttcactgtggagtatgcttcttatgaca--acctggtgttggaacag--------------
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TGATATTGGGCAATTCCACCCTGATGGATGTCTTGAAATCATAGATAGGAAGAAAGATATTGTCAAACTTCAACATGGAGAATATATCTCTCTCGGAAAGgtaactc---aaaccatacctt--gttcgttttggagtctggataaagtacttacaccagatccacagtaactttttctgggccttacgtagtgttttaattatgacttacttgcagMapped 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|162154796|gb|FC331110.1|FC331110EST: AGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAG GTGGAGGCTGTGCTTTCAGCAAGTCTTTATGTGGAGAACATCATGCTACAC
genomic: AGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAGgtgctgctgt ... gttggaacagGTGGAGGCTGTGCTTTCAGCAAGTCTTTATGTGGAGAACATCATGCTACAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGACATTGGCCGCTTTCATGAAGACGGATGTATAGAAATTATTGATCGTAAGAAGGATATTGTGAAATTGCAACATGGAGAATATATATCACTGGGAAAGgtgctgctgtaatctatacctcacgttactgtcctcatgctgtcaagtttttttgtttcactgtggagtatgcttcttatgacaacctggtgttggaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA