Sequence
atgc intronic sequence ATGC exonic sequenceGGGCTGGCTCCACACGGGCGACATAGGATACATAGATAACGATGGAGATGTTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAGgtatgatactagtaagccattgaaattgttttccgttgagaagaagtgctactgattcttcctttttctctaacattgtcggcactgcatcgacgtcactgtgaatgtgttatctttgggttttgtgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S96_224V6.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S96_224V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ16949 (Selaginella moellendorffii), 5'ss of exon 3
GGGCTGGCTCCACACGGGCGACATAGGATACATAGATAACGATGGAGATGTTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAGgtatgatactagtaagccattgaaattgttttccgttgagaagaagtgctactgattcttcctttttctctaacattgtcggcactgcatcgacgtcactgtgaatgtgttatctttgggttttgtgcag
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GGGCTGGCTACATACCGGAGACGTAGGATACATTGATGACGACGGTGACATTTTCATCGTTGACAGAGTAAAAGAGCTGATCAAATATAAAGGCTTTCAGgtgaga-----gcggg------------ttttc-----agaaagagaggaacttatgctgtcttgttctcgtag--------------------------------------------------------
upper sequence: PP1S96_224V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ16070 (Selaginella moellendorffii), 5'ss of exon 3
GGGCTGGCTCCACACGGGCGACATAGGATACATAGATAACGATGGAGATGTTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAGgtatgatactagtaagccattgaaattgttttccgttgagaagaagtgctactgattcttcctttttctctaacattgtcggcactgcatcgacgtcactgtgaatgtgttatctttgggttttgtgcag
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GGGCTGGCTACATACCGGAGACGTAGGATACATTGATGACGACGGTGACATTTTCATCGTTGACAGAGTAAAAGAGCTGATCAAATATAAAGGCTTTCAGgtgaga-----gcggg------------ttttc-----agaaagagaggaacttatgctgtcttgttcacgtag--------------------------------------------------------Mapped 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|208392695|gb|DC938604.1|DC938604EST: TTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAG GTACCTCCTGCCGAACTGGAAGCAGTTCTGATATCGCACCCAGCCGTAGCA
genomic: TTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAGgtatgatact ... ttttgtgcagGTACCTCCTGCCGAACTGGAAGCAGTTCTGATATCGCACCCAGCCGTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGCTGGCTCCACACGGGCGACATAGGATACATAGATAACGATGGAGATGTTTTCATTGTGGAGAGAATGAAAGAGCTCATCAAATACAAAGGCTTTCAGgtatgatactagtaagccattgaaattgttttccgttgagaagaagtgctactgattcttcctttttctctaacattgtcggcactgcatcgacgtcactgtgaatgtgttatctttgggttttgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA