Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggcacattccttgaactcacaacagtttctcgtgttgcgttgcagtaccgcaatgtcgcagaataatgtgtcgtgatagctcacactgtatctgtgtggcgttgttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
Basic information
species | Physcomitrella patens |
transcript | PP1S37_355V6.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S37_355V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g12150.1 (Oryza sativa), 3'ss of exon 1
--------------gtaagtggcacattccttgaactcacaacagtttc--tcgtgttgcgttgcagtaccgcaatgtcgcagaataa--tgtgtcgtgatagctcacactgt--atctgtgtggcgttgtt--ccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
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gtatgcaccattctaccttcaaatctttgatcaaaaccatgatgccatcaatggcattgtgtt-caatttgttcaggagatatgatgagttgggttctaatggagtgcaatgcaaatgtttgtgtttttgtttgtctttcagGTTGATCTTGTTGGAGGTTATTATGATGCAGGGGACAATGTCAAGTTTGGGTTGCCAATGGCGTTCACGGTGACCATGATGTCGTGGAGCATATTAGAGT
upper sequence: PP1S37_355V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ23398 (Selaginella moellendorffii), 3'ss of exon 1
------------------------------gtaagtggcacattccttgaactcacaacagtttctcgtgttgcgttgcagtacc--gcaatgtcgcagaataatgtgtcgtgatagctcacactgtat---ctgtgtggcgttgttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
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gtacgaaaagctctcaagattctaccatcttttctttgttcttcgtttcatcatccctttgttcttcgcaaagtagacgatttcctcgcattctctcttagttttccttctcaaaggtggagttttccttcactgacccgcaatctttgttccagGTTGATCTCTCGGGAGGCTACTACGATGCCGGCGACAACGTCAAGTTTGGACTCCCCATGGCCTTCACGATCACGATGCTCTCGTGGAGCGTGGTCGAGT
upper sequence: PP1S37_355V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ25378 (Selaginella moellendorffii), 3'ss of exon 1
------------------------------gtaagtggcacattccttgaactcacaacagtttctcgtgttgcgttgcagtacc--gcaatgtcgcagaataatgtgtcgtgatagctcacactgtat---ctgtgtggcgttgttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
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gtacgaaaagctctcaagattctaccatcttttctttgttcttcgtttcatcacccctttgttcttcgcaaagtagacgatttcctcgcattctctcttagttttccttctcaaaggtggagttttccttcactgactcgcaatctttgttccagGTTGATCTCTCGGGAGGTTACTACGATGCCGGCGACAACGTCAAGTTTGGACTCCCCATGGCCTTCACGATCACGATGCTCTCGTGGAGCGTGGTCGAGTMapped 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|67570279|gb|BJ943103.1|BJ943103EST: GTGTCTCTTGGCGCGGGGATTCGGGGATTAATGACGGGCAAGAAGATGGA GTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGT
genomic: GTGTCTCTTGGCGCGGGGATTCGGGGATTAATGACGGGCAAGAAGATGGAgtaagtggca ... ttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaataatgtgtcgtgatagctcacactgtatctgtgtggcgttgttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
agctcac putative branch site (score: 3)
ttgttcc putative PPT
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggcacattccttgaactcacaacagtttctcgtgttgcgttgcagtaccgcaatgtcgcagaataatgtgtcgtgatagctcacactgtatctgtgtggcgttgttccgtgtagGTTGACCTTTCGGGAGGTTACTACGATGCAGGAGACAATGTCAAGTATGGTCTGCCGATGGCGTTTACCATTACTATGCTCTCTTGGAGTGTAATTGAAT
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