Sequence
atgc intronic sequence ATGC exonic sequenceACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgacatctttg...
Basic information
species | Physcomitrella patens |
transcript | PP1S86_26V6.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G177485_T01 (Zea mays), 5'ss of exon 3
ACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgacatctttg
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ACTGCACACCCCGATTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTGATGGAGgtaaactttga------ttcttcta-gcctaaggttgcctgctttgatgcttccattgtgtat--ctgattttccttttc---cttgaacag--------
upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G031609_T02 (Zea mays), 5'ss of exon 8
ACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgacatctttg
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ACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTGATGGAGgtaaactttga------ttcttcta-gcctaaggttgcctgctttgatgcttccattgtgtat--ctgattttccttttc---cttgaacag--------
upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G052277_T01 (Zea mays), 5'ss of exon 8
ACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgacatctttg
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ACTGCACACCCTGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTGATGGAGgtaaactttga--------ttcttccagcctaaggt-tgccttacttcta-----ttgtgtat--ctgatgtttcttttccatgaacag-----------
upper sequence: PP1S86_26V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G131118_T01 (Zea mays), 5'ss of exon 6
ACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgaca-tctttg-
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ACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTGATGGAGgtaaactttga-ttcttctagcctaaggttgcctgctttgat-gcttccattgtgtatctgattttccttttccttgaacagatgggcaggttgctgcttgcMapped 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|100385026|gb|BY987489.1|BY987489EST: TCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATG ATGGGTTTGTGGTGACATGCTTGGATGTCTTACAGCTCACACATGGAGCTG
genomic: TCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattg ... tgatgtacagATGGGTTTGTGGTGACATGCTTGGATGTCTTACAGCTCACACATGGAGCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAGATCATGgtagacattgggctccccttttctgcattcgaaagtgcaaattgcgggtgaaaagttgtgcatgattagtttgtctttccgaatttccatgacatctttg
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