Sequence
atgc intronic sequence ATGC exonic sequenceGCGAGAGGTCAAGAATGTTCGGGGTTCGACCCAAAAGAAAATTGAGAAACTTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtactgtcctatttatgcgaatggtatgtactcatatgttgaacttgttatgattgtgtgtctttgttaacgtttatttaaaaagttcatttaacatagtggttcgcattgtggcag
Basic information
species | Physcomitrella patens |
transcript | PP1S58_188V6.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S58_188V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA06G10090.1 (Glycine max), 5'ss of exon 11
GCGAGAGGTCAAGAATGTTCGGGGTTCGACCCAAAAGAAAATTGAGAAACTTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtactgtcctatttatgcgaatggta-tgtact----catatgttgaacttgtta-------tgattgtgtgtctttgttaa--cgtttattt--aaaaagttcatttaacatagtggttcgcattgtggcag----------------------------------
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TAGAGAAGTAAGTAATGTTCGTGGTAATACACAGAAGAAGATTGAAAAGCTTAGACAACTACTTTCTGGTCTTCTTAGTGAACTTACCTATTTTGATGAGgtat-caatctcacatgaagctgtattgtagtttattgttctttttgtttactcttttactttaattaatgatgcatcttgaagaaactatttatttccaacaattatatctagcaaattcttagaaggttcttcaactgtatgcttattgttgctatgtttcacttgtag
upper sequence: PP1S58_188V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA04G10090.1 (Glycine max), 5'ss of exon 11
GCGAGAGGTCAAGAATGTTCGGGGTTCGACCCAAAAGAAAATTGAGAAACTTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtactgtcctatttatgcgaatggta------tgtactcatatgttg----aacttgtta--tgattgtgtgtctttgttaa--cgtttattt--aaaaagttcatttaacatagtggttcgcattgtggcag----------------------------------
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TAGAGAAGTAAGGAATGTTCGTGGTAATACACAGAAGAAGATTGAAAAGCTGAGACAACTACTTTCTGGTCTTCTTAGTGAACTTACCTATTTTGATGAGgtaaatatc-tcacatgaagctgtatcgtagtttattattttcatcttttactttacccttttagttaatgatgcatcttgaagaaactatttatttccaataattatatctagcaaattcttagaaggttcttcaactgtatgtttattgttgctttatttcacttgtag
upper sequence: PP1S58_188V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 5'ss of exon 11
GCGAGAGGTCAAGAATGTTCGGGGTTCGACCCAAAAGAAAATTGAGAAACTTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtact--gtcctatttatgcgaatggt------atgtactcatatgttgaacttgttatgat-tgtgtgtctttgt--------taacgttta--tttaaaaagttcatttaacata---gtggttcgcattgtggcag-----------------
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GAGAGATGTAAGAACTGTGCGTGGTGGAACCCAGAAGAAAATTGAAAAGCTTAGACAGCTTCTTTCTGGCCTTCTTAGTGAGCTTACCTATTTTGAAGAGgtatttgtttgattcaaagttgactattgatcttgtcatctgctaactttctgagctttgtctgacatttattttgttgcatcggatatagctttcagattgtaacagttgcttttaaatatttataatttgagatgtgtttgatttgttacactttcagMapped 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|67574088|gb|BJ946912.1|BJ946912EST: TTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAG CCCATCCCTTTACCACTTGAACCTCGCTTGATGATTACTGGTATCATACCA
genomic: TTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtactg ... attgtggcagCCCATCCCTTTACCACTTGAACCTCGCTTGATGATTACTGGTATCATACCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGAGAGGTCAAGAATGTTCGGGGTTCGACCCAAAAGAAAATTGAGAAACTTCGGCAGCTACTATCAGGCCTTCTTAGTGAACTGACCTATTTTGATGAGgtatgtactgtcctatttatgcgaatggtatgtactcatatgttgaacttgttatgattgtgtgtctttgttaacgtttatttaaaaagttcatttaacatagtggttcgcattgtggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT