Sequence
atgc intronic sequence ATGC exonic sequenceAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCTgtaagtagtctcttgcactttctatttgttaacggtttttccttttttatttaaatttatcttatattgtatatgttggtttgtgtgatatttgaggaaa...
Basic information
species | Physcomitrella patens |
transcript | PP1S58_197V6.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S58_197V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 5'ss of exon 5
AAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCTgtaagtagtctcttgcactttctatttgtta-acggtttttccttttttatttaaatttatcttatattgtatatgttggtttgtgtgatatttgaggaaa
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ATCAACTCTGGCAACGTTTGTGGCTGTTTATGCACTTTTTGGACCAACCTTTCCTGGGATTTATGATAAAGAAAGAGGGATTTATTCTCTGTTCTACCCGgtgagcaagaaataga-----cagatggtcacattgttttaccattaatgtttgaatttgttctat-caatgt---ttaatctttttaactattgcag---
upper sequence: PP1S58_197V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 5
AAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCTgtaagtagtctcttgcactttctatttgttaacggtttttccttttttatttaaatttatcttatattgtatatgttggtttgtgtgatatttgaggaaa----
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ATCAACTCTAGCTACTTTTGTAGCTGTATATGCACTTTTTGGACCAACTTTTCCAGGAAGTTACGACAAAGATAGAGGTGTTTACACTCTGTTCTACCCGgtatata----caagaagatatt--taagcaaaattttgttcatttttctttgaaaatttgttttcttccatgctgagatttctttggtgtctgtattttgtagMapped 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|100411979|gb|BY956357.1|BY956357EST: TTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCT GGTCTATCATTCGCTTTCCCTATCCCAGTACAGTACACAGAGTGTTGTCAG
genomic: TTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCTgtaagtagtc ... tatcttacagGGTCTATCATTCGCTTTCCCTATCCCAGTACAGTACACAGAGTGTTGTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTTTACCCTgtaagtagtctcttgcactttctatttgttaacggtttttccttttttatttaaatttatcttatattgtatatgttggtttgtgtgatatttgaggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC