Sequence
atgc intronic sequence ATGC exonic sequenceCTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccacttttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
Basic information
species | Physcomitrella patens |
transcript | PP1S99_87V6.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA19G07410.1 (Glycine max), 5'ss of exon 8
CTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccacttttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
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CTTAGAGAAATGAAGGCATTTTCAAAGTTGTTGTTTCCATCTGTTAAGGACAGCACCTTTTTTGAGAGCTGTGGTGTAGCTGACCTTATCACAACATGCTgtaa------ggaagctaattagtttcaccct------atttttcattgcttatcttttgaaaaccaaattgtctatggcag----------------------------------------------------------------------------------------
upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA05G24070.1 (Glycine max), 5'ss of exon 11
CTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccacttttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
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CTTAGAGAAATGAAGGCATTTTCAAAGTTGTTGTTTCCATCTGTTAAGGACAGCACTTTTTTTGAGAGCTGTGGTGTAGCTGACCTTATCACAACATGCTgtaagga---agctaatt--aatttcacc-------ttatttttcattgcttatcttatgaaaatcatattgtctgtggcag----------------------------------------------------------------------------------------
upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA19G23190.1 (Glycine max), 5'ss of exon 9
CTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccactt-ttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
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CTGAAAGAGATGAGGGCATTTTCAAAGATGTGGTTTCCATCTGTTAAGGACAACACCTTTTTTGAGAGCTGTGGTGTAGCTGACCTTATCACAACATGCAgtaagga--cactgattaattgacttcac--cttatttttcattgg--tca-tatatcctggtttcatttaaaaccatattatttgtggcag-------------------------------------------------------------------------------
upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: Vv14s0219g00280.t01 (Vitis vinifera), 5'ss of exon 8
CTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccacttttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
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CTAAGGGAGATGAAGGCTTTCTCCAAGTTGCTGTTCTCATCTGTTAGAGACAGTACCTTCTTTGAGAGCTGTGGCATAGCTGATCTCATCACTACATGCTgtaaggaagcagatagattaatttttaaagcttt--tccttaaaaaataaccatattgttgtccatggcag---------------------------------------------------------------------------------------------------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|162234093|gb|FC410333.1|FC410333EST: TGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCT TTGGGGGGCGCAACAGGAAAGTTGCTGAGGCATATGCACGAAATGGTGGAA
genomic: TGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttc ... tatttcacagTTGGGGGGCGCAACAGGAAAGTTGCTGAGGCATATGCACGAAATGGTGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGAAGGAGATGATTGGATTTTCAAAGCTGCTGTTTCCAACTGTCAGTGATGCAACCTTTTTTGAGAGCTGTGGCGTAGCAGATCTGATCACTACATGCTgtaatttttcacccacttttgagtttactgcttggattatgctgcactcactatttcgcgatagttactatatgcatgttacatgtaatgtacttcttaatttagtattagttacaaagcgaatcacaagtgtcattgagatgtacccttggtatttgaatatttcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT