Sequence
atgc intronic sequence ATGC exonic sequenceGAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgttattcctggacttgagttgcatctctattaggattttctgaagcgactatattccaagt...
Basic information
species | Physcomitrella patens |
transcript | PP1S54_228V6.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S54_228V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA10G36210.1 (Glycine max), 5'ss of exon 14
GAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgttattcctggacttgagttgcatctctattaggattttctgaagcgactatattccaagt
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AGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAATACAGGgtgagagaacagaatactagatttac-ttgctctatgtttgtacgttctacc----ggtttttttctaatataagtttgtatag----------------
upper sequence: PP1S54_228V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 14
GAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgttattcctggacttgagttgcatctctattaggattttctgaagcgactatattccaagt
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AGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGGgtgag--gacagaatgctagattt---tcttcctgta----tgcttctatgttctacctagttttctaatgcaagtttgtatag----------------
upper sequence: PP1S54_228V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT5G08660.1 (Arabidopsis thaliana), 5'ss of exon 12
GAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgt-tattcctggacttgagttgcatctctattaggattttctgaagcgactatattccaagt
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AGCGCATCATGGTTTTGGCTGGGTTGGAGAGTGGGCAAATACAGGgtgagtgatgaatgaaattagacctgcaacttctacattttgtctttttatttctccaatgctttcgtttttaatcttacag-------------------
upper sequence: PP1S54_228V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 5'ss of exon 12
GAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgt-tattcctggacttgagttgcat-ctctattagg-attttctgaagcgactatattccaagt
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AGCGCATCATGGTTTTGGATGGGTTGGAGAATGGGCAAGTTCCGGgtaagccctgactacaagctgattctctctttgtgctgtgtatatatgcagac---aactgcattctttactaaatgttagattatgcaaa-ataactcag--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|162177931|gb|FC354037.1|FC354037EST: GGAGAGTGGGCGAATGCTGG GTCGCCGGCAGACCGGAAAGCCCTGGGTTGCGTCGAAATAACCTCTTTTAC
genomic: GGAGAGTGGGCGAATGCTGGgtaagttgac ... taaatgtcagGTCGCCGGCAGACCGGAAAGCCCTGGGTTGCGTCGAAATAACC-CTTTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGGgtaagttgacactcctttctgtttgcgttcttctgtaacgttattcctggacttgagttgcatctctattaggattttctgaagcgactatattccaagt
- - - - - - - - - - - TTGGAG
- - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - ATGCTG