Sequence
atgc intronic sequence ATGC exonic sequenceCATCATTAAAGTCTGTGGGTTGCCTAATATTTTGCCATCTTCAACAAATCCCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagctggactgttttgcaatcttgagagaatgttcatcctagcatgtggccagcatttcttttctctactagatgaactgcttcaaagggagtaa...
Basic information
species | Physcomitrella patens |
transcript | PP1S274_69V6.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S274_69V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: GLYMA11G37250.1 (Glycine max), 5'ss of exon 14
CATCATTAAAGTCTGTGGGTTGCCTAATATTTTGCCATCTTCAACAAATCCCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagctggactgttttgcaatcttg-agagaatgttcatcctagcatgtggccagcatttcttttctctactagatgaactgcttcaaagggagtaa
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TATCATAAAAGTATGTGGTGAGAAGAATGTCCTACCCTCATCAACAAATCCCACACGTCCTTATACACATAATACCATAGATGAGCATCTCGACATGTTGgtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacag------------------------
upper sequence: PP1S274_69V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: AT1G67550.1 (Arabidopsis thaliana), 5'ss of exon 13
CATCATTAAAGTCTGTGGGTTGCCTAATATTTTGCCATCTTCAACAAATCCCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagctggactgttttgcaatcttgagagaatgttcatcctagcatgtggccagcatttcttttctctactagatgaactgcttcaaagggagtaa
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TATCATTAGAGTTTGTGGAGTGAAAAATGTACTCCCGTCATCAACCAACCCAACACGGCCATATACGAAAAATACTGTAGATGAACATCTTGACATGCTGgta-tgag----aattttatacgagtgatggtgaattgctttacttttgtcttgttaataacctcatatgcaa--acacaaacag---------------
upper sequence: PP1S274_69V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 5'ss of exon 13
CATCATTAAAGTCTGTGGGTTGCCTAATATTTTGCCATCTTCAACAAATCCCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagctggactgttttgcaatcttgagagaatgttcatcctagcatgtggccagcatttcttttctctactagatgaactgcttcaaagggagtaa
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TATCATCAAAGTATGTGGTGTGAAAAATGTTCTACCCTCATCCACAAACCCAACACGGCCTTTCACTTCCAATACCATAGATGAGCACCTTGACATGCTGgtatgaa-----aagattatgaagatatatggtaactttt---tggacagttgacttgtaaattgatctg--attacatgcag-----------------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|100417797|gb|BY975658.1|BY975658EST: CCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTG ATGGTGTGTCATCATCTCAACAAGAATATTTCAGAGGACGTTTCTTTTACA
genomic: CCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagct ... tcctgtgcagATGGTGTGTCATCATCTCAACAAGAATATTTCAGAGGACGTTTCTTTTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATCATTAAAGTCTGTGGGTTGCCTAATATTTTGCCATCTTCAACAAATCCCACAAGGCCTTACACAGTCAATACCATAGATGAACATCTTGACATGCTGgtactgagctggactgttttgcaatcttgagagaatgttcatcctagcatgtggccagcatttcttttctctactagatgaactgcttcaaagggagtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG