Sequence
atgc intronic sequence ATGC exonic sequenceGCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattctatcttgtttacttcgatctagataatagatctttatggttgcaaccttcaagaggaattcagtctacaggcacatgtgtagaaactttg...
Basic information
species | Physcomitrella patens |
transcript | PP1S14_182V6.1 |
intron # | 26 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 26
lower sequence: GLYMA04G38800.2 (Glycine max), 5'ss of exon 10
GCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattctatcttgtttacttcgatctagataatagatctttatggttgcaaccttcaagaggaattcagtctacaggcacatgtgtagaaactttg
|||||||||||||| || |||||||| ||||| || ||||||||||| ||||| ||||| |||||||| || || ||||| | |||||||| | | | || || | | | | || |||| ||| | || ||||| | |||
GCATACGAGAAATCAGAGGATCCTATCTATGTTCTAGAGAACAACATACCAATAGATCCTCAGTACTATCTTGAGAATCAAATTAGCAAGgttggtttatgactttattggatgttttggatttctctaatgtttactgttct---ttattagcttcattcatattgcag--------------------
upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 26
lower sequence: EFJ15982 (Selaginella moellendorffii), 5'ss of exon 25
GCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattctatcttgtttacttcgatctagataatagatctttatggttgcaaccttcaagaggaattcagtctacaggcacatgtgtagaaactttg
||||| ||| ||||| ||||| || ||||| |||| || |||||||| |||||||| |||||||| || |||||||||||||| |||| || | | | | | || | | || |||
GCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAGg----taccacaaaagaccgagatttgtttgtgcgctaagattatg-agtcgcag---------------------------------------------
upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 26
lower sequence: EFJ15224 (Selaginella moellendorffii), 5'ss of exon 25
GCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattctatcttgtttacttcgatctagataatagatctttatggttgcaaccttcaagaggaattcagtctacaggcacatgtgtagaaactttg
||||| ||| ||||| ||||| || ||||| |||| || |||||||| |||||||| |||||||| || |||||||||||||| |||| || | | | | | | || | | || |||
GCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAGg----taccacaaaagactgagatgtgtttgtgcgctaagattatg-agtcgcag---------------------------------------------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|7147993|gb|AW509915.1|AW509915EST: ATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAG CCCTTGCTACGTCTTTTTGATCCCATTCTTAAGAATGCAAGCAAGGAATTG
genomic: ATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattc ... tgatggtcagCCCTTGCTACGTCTTTTTGATCCCATTCTTAAGAATGCAAGCAAGGAATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAGgtctttattctatcttgtttacttcgatctagataatagatctttatggttgcaaccttcaagaggaattcagtctacaggcacatgtgtagaaactttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG