Sequence
atgc intronic sequence ATGC exonic sequence...ttgagatattagtacatcattatttgctgcttttcaaatattgtgcattacatgttctaaattttcacgtttacatcagtttcgtgttttgttggttcagGGCATGACAAATATGGAACTCCAGTTTCAAATGGCTATTAGGGATCAAATAATACACGATCAGCGGGAGGCTTTGAGCAATTTGTGGTTGGTTCTTGAAT
Basic information
species | Physcomitrella patens |
transcript | PP1S7_82V6.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S7_82V6.1 (Physcomitrella patens), 3'ss of exon 14
lower sequence: EFJ15186 (Selaginella moellendorffii), 3'ss of exon 14
ttgagatattagtacatcattatttgctgcttttcaaatattgtgcattacatgttctaaattttcacgt-ttacatcagtttcgtgttttgttggttcagGGCATGACAAATATGGAACTCCAGTTTCAAATGGCTATTAGGGATCAAATAATACACGATCAGCGGGAGGCTTTGAGCAATTTGTGGTTGGTTCTTGAAT
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-----------------------------------------------gtaagccatttagtttcgtaagcattttaacggactcct-ccgtaatactgcagGGAATGACGAATATGGAGCTGCAATTTCAAATGGCTATCAGGGATCAGATAATTCAGGATCAAAGAGAGGCCTTGAACAATATGTGGCGGCTACTGGAAA
upper sequence: PP1S7_82V6.1 (Physcomitrella patens), 3'ss of exon 14
lower sequence: EFJ09876 (Selaginella moellendorffii), 3'ss of exon 14
ttgagatattagtacatcattatttgctgcttttcaaatattgtgcattacatgttctaaattttcacgtttacatcagtttcgtgttttgttggttcagGGCATGACAAATATGGAACTCCAGTTTCAAATGGCTATTAGGGATCAAATAATACACGATCAGCGGGAGGCTTTGAGCAATTTGTGGTTGGTTCTTGAAT
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----------------------------------------------gtaagccattttgtttcgtaagcattttaacggactcct-ccgtgatactgcagGGAATGACGAATATGGAGCTGCAATTTCAAATGGCTATCAGGGATCAGATAATTCAGGATCAAAGAGAGGCCTTGAACAATATGTGGCGGCTACTGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattacatgttctaaattttcacgtttacatcagtttcgtgttttgttggttcagGGCATGACAAATATGGAACTCCAGTTTCAAATGGCTATTAGGGATCAAATAATACACGATCAGCGGGAGGCTTTGAGCAATTTGTGGTTGGTTCTTGAAT
ttctaaa putative branch site (score: 2)
ttttgtt putative PPT
atgttctaaatttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgagatattagtacatcattatttgctgcttttcaaatattgtgcattacatgttctaaattttcacgtttacatcagtttcgtgttttgttggttcagGGCATGACAAATATGGAACTCCAGTTTCAAATGGCTATTAGGGATCAAATAATACACGATCAGCGGGAGGCTTTGAGCAATTTGTGGTTGGTTCTTGAAT
- - - - - - - - - - - - tgctgct