Sequence
atgc intronic sequence ATGC exonic sequenceCCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatccttcttacaccacccaatctatatattactgtcggcttgaggttatgttatgtaggtaggtgtactgtgaatcatggatatctggtactg...
Basic information
species | Physcomitrella patens |
transcript | PP1S22_429V6.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 5'ss of exon 9
CCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatccttcttacaccacccaatctatata-ttactgtcggcttgaggttatgttatgtaggtaggtgtactgtgaatcatggatatctggtactg
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TAGTGGAGTAGAATGGGACAAATTATATGAAATAGAAGCAGCATATCAACCTCAAGTCACTGATGAGTTAGATACTCAGAATTTTGAGAAGTTTGAAGAGgttaggggtcgtttcttttggcctaaaggaattcagtttcaataagttggtataaatgttattcctat-ggtgtgttttgcag------------------
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os12g19290.1 (Oryza sativa), 5'ss of exon 9
CCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatccttcttacaccacccaatctatatattactgtcggcttgaggt-tatgt-tatgtaggtaggtgtact--gtgaatcatggatatctggtactg
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CAAAGGTCTTGAGTGGGAGAAGCTATATCAGATGGAGGCTGCTTTTATTCCTGAGGTTAATGACGAGTTGGACACACAAAATTTTGAGAAATTTGAGGAGgtgaggtgtcattacgaagctattttggccagttaatggttccaactttttctctatacatattagagtacatgtctcaagtcaactttaaaaactttga----
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA13G18670.2 (Glycine max), 5'ss of exon 9
CCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatccttcttacaccacccaatctatata--ttactgtcggcttgaggttatgttatgtaggtaggtgtactgtgaatcatggatatctggtactg
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CAAAGGTGTTGAATGGGATAAGCTCTATCAAATGGAAGCTGCATTTATTCCTGAGGTCAATGATGAGTTAGATACTCAGAATTTTGAAAAGTTTGATGAGgtatt-cgagtttcttatatt-cttgttttgtgtagcttgttgtcggccacttgtcgtgtt---caatttttctcattttatcttttgcatttgtag-----
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 5'ss of exon 9
CCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgt-ctggcatccttcttacaccacccaatctatatattactgtcggcttgaggttatgttatgtaggt-aggtgtactgtgaatcatggatatctggtactg-
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TGAAGGTACTGAATGGGATAGACTATATCTTATGGAAGCTGCATTTATTCCCGAGGTCAGAGATGAATTAGATACTCAGAATTTTGAAAAGTTCGAAGAGgtattgatatgctctattcttttgctgatct-tgtgccacaacttgtttggagttttttcatgttgcttatctactttttgagcctattttatgggtttgcagMapped 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|37849883|gb|BJ607891.1|BJ607891EST: CTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAG AGCGATTCCCAGATACCATCATCCACAAGATCAGGACCATGGAGAAAG
genomic: CTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatc ... ttatttgcagAGCGATTCCCAGATACCATCATCCACAAGATCAGGACCATGGAGAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCATGGATTACCTTGGGATAAGCTGTATGAGATGGATGCAGCTTTTAAACCTGAGGTGAAAGATGAGCTGGACACTCAGAATTTTGAGAAGTTCGAAGAGgtctggcatccttcttacaccacccaatctatatattactgtcggcttgaggttatgttatgtaggtaggtgtactgtgaatcatggatatctggtactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA