Sequence
atgc intronic sequence ATGC exonic sequenceACTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgtttgggaaatccatttttggaaactgaaatcactaattccttcagtgcaacatttttatgttgtatgcaacttttcgctcaacttcgtgggttttacaagtttgttgtgcatacattgaaatcgaaattatcttctgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S152_48V6.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S152_48V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: LOC_Os02g13990.3 (Oryza sativa), 5'ss of exon 6
ACTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgtttgggaaatccatttttggaaactgaaatcactaattccttcagtgcaacatttttatgttgtatgcaacttttcgctcaacttcgtgggttttacaagtttgttgtgcatacattgaaatcgaaattatcttctgcag
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GCTGCCATTGTGAATTCTCAGACACTTGAGGAGGTTGCAAGGCTTGAAAAGgtagca-tgtcctttcgtttagctcctgcgctttgta-----cagtt-------tggaacagctaactatgggctcacatttctttttcactactgtgatgattag-------------------------------------------
upper sequence: PP1S152_48V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GLYMA20G18440.1 (Glycine max), 5'ss of exon 7
ACTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgtttgggaaatccatttttggaaactgaaatcactaattccttcagtgcaacatttttatgttgtatgcaacttttcgctcaacttcgtgggttttacaagtttgttgtgcatacattgaaatcgaaattatcttctgcag
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GCTGCCATTGTGAATTCTCAGACTCTTGAAGAGGTTGCTAGGCTTGAAAAGgtgcctgcttttctaaattagataattgcttattggattttaatgtttgttt-gtgtaatactcatgcttaacttagaatattgaaattacattaaataat------------------------------------------------
upper sequence: PP1S152_48V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: Vv01s0150g00590.t01 (Vitis vinifera), 5'ss of exon 6
ACTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgtttgggaaatccatttttggaaactgaaatcactaattccttcagtgcaacatttttatgttgtatgcaac-ttttcgctcaacttcgtgggttttacaagtttgttgtgcatacattgaaatcgaaattatcttctgcag
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GCCGCAATTGTGAATTCACAGACTCTTGAAGAGGTTGCAAGGCTTGAAAAGgtgctgtcttttgtttaat-------tagacttggatttcattttgtttttcaatgtttattctttatttttaacaccatgttttcatatgaatt---gtgcttgggtag----------------------------------------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|37838587|gb|BJ596595.1|BJ596595EST: CTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAG GCGCTAAAGCTAGGACAATTGCCCTCGGATATTGTGCTACCCGGGAATGAT
genomic: CTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgt ... tcttctgcagGCGCTAAAGCTAGGACAATTGCCCTCGGATATTGTGCTACCCGGGAATGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGCCATCGCAAATTCACAGACACTTGAAGAAGTTGCCAGGCTTGAAAAGgtagcactgtttgggaaatccatttttggaaactgaaatcactaattccttcagtgcaacatttttatgttgtatgcaacttttcgctcaacttcgtgggttttacaagtttgttgtgcatacattgaaatcgaaattatcttctgcag
- - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - AGAAGT