Sequence
atgc intronic sequence ATGC exonic sequenceTTTTCAAAGGCCTTGAATCGGTTTCAAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAGgtaaatcatttcacagcttgtttttacttgttccttgcttttgtggtacatttattggtattttcaatctccagtgacctaactttattgcaattctattcaaagtgaatggagttcagaggatttatctgaggggccgggactggggcttgagtttctgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S20_94V6.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S20_94V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 5'ss of exon 12
TTTTCAAAGGCCTTGAATCGGTTTCAAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAGgtaaatcatttcacagcttgtttttacttgttccttgcttttgtggtacatttattggtattttcaatctccagtgacctaactttattgcaattctattcaaagtgaatggagttcagaggatttatctgaggggccgggactggggcttgagtttctgcag
|| || || || |||||||| || || ||||||||||| || ||||| || |||||||||| || |||||||||||| |||| | | | || ||| | | || | | | || | |||||| | | ||| || || || || | | | | || |
TTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAGgta--tcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtattt---aacattgatga-------ttcttccatttatccttcatgggacag----------------------------------------------------
upper sequence: PP1S20_94V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 12
TTTTCAAAGGCCTTGAATCGGTTTCAAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAGgtaaatcatttcacagcttgtttttacttgttccttgcttttgtggtacattt-attggtattttcaatctccagtgacctaactttattgcaattctattcaaagtgaatggagttcagaggatttatctgaggggccgggactggggcttgagtttctgcag
|| || || || ||||||| || || ||||||||||| || ||||| || |||||||||| || |||||||||||| |||| | | | || ||| | | || | | | || ||| |||||| || | | || | ||| |
TTCTCGAAAGCACTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAGgta--tcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacag--------------------------------------------------------------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|162163647|gb|FC340272.1|FC340272EST: AAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAG ACAATTATTTCGGGGATGGGAGAGCTGCATCTTGACATATATGTTGAACGC
genomic: AAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAGgtaaatcatt ... gtttctgcagACAATTATTTCGGGGATGGGAGAGCTGCATCTTGACATATATGTTGAACGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTTCAAAGGCCTTGAATCGGTTTCAAAAAGAGGATCCAACATTCCGGGTCAGTTTGGATCCAGATAGTGGCCAGgtaaatcatttcacagcttgtttttacttgttccttgcttttgtggtacatttattggtattttcaatctccagtgacctaactttattgcaattctattcaaagtgaatggagttcagaggatttatctgaggggccgggactggggcttgagtttctgcag
- - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - GAGGAT