Sequence
atgc intronic sequence ATGC exonic sequenceTCTGGAAATTGCTGTGACTCGATTGCTACTTAAGTCCTACTATGACATTGTGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagttttctcacttatatcttgctgaagatgttgcttcaattcattggacttactgtcataggtttactaggaggcagcaatacatttgttggtctatgaataagtttacatgtttccttggtcgaattttcaacctgatgactgttttcttgatataacag
Basic information
species | Physcomitrella patens |
transcript | PP1S187_100V6.4 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S187_100V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 5'ss of exon 17
TCTGGAAATTGCTGTGACTCGATTGCTACTTAAGTCCTACTATGACATTGTGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagttttctcacttatatcttgctgaagatgttgcttcaa-ttcattggacttactgtcataggtttactaggaggcagcaatacatttgttggtctatgaataagtttacatgtttccttggtcgaattttcaacctgatgactgttttcttgatataacag
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AGTTGAGATTCAGATAACAAAGCTGTTACTAAGATCATACTATGACATTGTAAGGAAGAATATTGAGGACTCGGTACCAAAAGCAATCATGCATTTCCTGgcaagtaccctcatccctttccccaagtttcttgcagtatctcaaacttgtacgatatatcatcaccttgatatttgattgcc-ctttgaaattgtctttt-------------------------------------------------------------------
upper sequence: PP1S187_100V6.2 (Physcomitrella patens), 5'ss of exon 19
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
TCTGGAAATTGCTGTGACTCGATTGCTACTTAAGTCCTACTATGACATTGTGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagttttctcacttatatcttgctgaagatgttgcttcaattcattggacttactgtcataggtt-tactaggaggcagcaatacatttgttggtctatgaataagtttacatgtttccttggtcgaattttcaacctgatgactgttttcttgatataacag
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AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtg--ttccactcttctagtcttctgattgtctagccaaa---cat----cttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctat---tccatataattgtgaataaaacacag-----------------------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|162202222|gb|FC377571.1|FC377571EST: TGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTG GTCAACCACGTGAAAAGGGAACTTCATACTGTATTTATCAGAAAGTTGTAC
genomic: TGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagtt ... gatataacagGTCAACCACGTGAAAAGGGAACTTCATACTGTATTTATCAGAAAGTTGTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGGAAATTGCTGTGACTCGATTGCTACTTAAGTCCTACTATGACATTGTGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagttttctcacttatatcttgctgaagatgttgcttcaattcattggacttactgtcataggtttactaggaggcagcaatacatttgttggtctatgaataagtttacatgtttccttggtcgaattttcaacctgatgactgttttcttgatataacag
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA