Sequence
atgc intronic sequence ATGC exonic sequenceGTACCAACAGGATGGAAGTTCTTTGGTAACCTCATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAGgtctacgctcattgcatccctcatcgtcaatgccttgcagtttgaaaaagttgtgttggactaatcttattaatggttattctttcatggtttgcttgggttcacgacatttataaactgcgatttatgtacttgagagtagtttaaaaggtttaagtggtgtttttgttttttgaactatggcacggtcttgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S4_12V6.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S4_12V6.3 (Physcomitrella patens), 5'ss of exon 14
lower sequence: AT1G70730.1 (Arabidopsis thaliana), 5'ss of exon 13
GTACCAACAGGATGGAAGTTCTTTGGTAACCTCATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAGgtctacgctcattgcatccctcatcgtcaatgccttgcagtttgaaaaagttgtgttggactaatcttattaatggttattctttcatggtttgcttgggttcacgacatttataaactgcgatttatgtacttgagagtagtttaaaaggtttaagtggtgtttttgttttttgaactatggcacggtcttgcag
|| |||||||| ||||| |||||||| || || ||||| || || |||||||| || ||||| ||||| ||||||||||| ||| | ||||| | || || ||| || | | || | | ||| | | | | || | |
GTTCCAACAGGCTGGAAATTCTTTGGCAATCTAATGGATGCTGGGATGTGCTCTGTATGCGGAGAAGAAAGTTTTGGAACCGgtgagcttctattgc-tagatcttcac--atgttttaaaacc-gtaacaaccctacacaactcac-------aaagaagcttttcgacag----------------------------------------------------------------------------------------------------------
upper sequence: PP1S4_12V6.3 (Physcomitrella patens), 5'ss of exon 14
lower sequence: AT1G23190.1 (Arabidopsis thaliana), 5'ss of exon 13
GTACCAACAGGATGGAAGTTCTTTGGTAACCTCATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAGgtctacgctcattgcatccctcatcgtcaatgccttgcagtttgaaaaagttgtgttggactaatcttattaatggttattctttcatggtttgcttgggttcacgacatttataaactgcgatttatgtacttgagagtagtttaaaaggtttaagtggtgtttttgttttttgaactatggcacggtcttgcag
|| |||||||| |||||||| |||||||| || ||||| || || ||||| || || || || ||||| ||||||||||| |||| ||| | | |||| || | | || |||| | | || | || | ||||||| |
GTTCCAACAGGCTGGAAGTTTTTTGGTAATCTGATGGATGCTGGGATGTGTTCTGTTTGTGGAGAAGAAAGTTTTGGAACTGgtcagtttctatttccacactcaca--catctgttcataactttaaaacaacctatacag------ttctgaaagaaagatctttcacag----------------------------------------------------------------------------------------------------------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|100406742|gb|BY955714.1|BY955714EST: CATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAG GTTCTGACCACATTAGAGAGAAGGATGGAATTTGGGCCGTTTTGGCATGGC
genomic: CATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAGgtctacgctc ... ggtcttgcagGTTCTGACCACATTAGAGAGAAGGATGGAATTTGGGCCGTTTTGGCATGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTACCAACAGGATGGAAGTTCTTTGGTAACCTCATGGACGCAGGCATGTGCTCGGTGTGCGGTGAAGAGAGTTTTGGAACAGgtctacgctcattgcatccctcatcgtcaatgccttgcagtttgaaaaagttgtgttggactaatcttattaatggttattctttcatggtttgcttgggttcacgacatttataaactgcgatttatgtacttgagagtagtttaaaaggtttaagtggtgtttttgttttttgaactatggcacggtcttgcag
- - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA