Sequence
atgc intronic sequence ATGC exonic sequenceAAAAGCCGTAAAGGACGCTGGGATTACAGAAGATGTCATGAAAGACTTGGACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgttgcaaagactcaactcacctttctatacagtattctaccacgatttgaactcctgtatagtgaaggtgtattaggattgtttactgtaaa...
Basic information
species | Physcomitrella patens |
transcript | PP1S60_261V6.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S60_261V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G152105_T03 (Zea mays), 5'ss of exon 3
AAAAGCCGTAAAGGACGCTGGGATTACAGAAGATGTCATGAAAGACTTGGACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgttgcaaagactcaactcacctttctatacagtattctaccacgatttgaactcctgtatagtgaaggtgtattaggattgtttactgtaaa
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GAAAGCATTGGAGAATGCTGGAATCACTGAAGAAGTCATGAATGAGTTGGAAAAATCAAGATGTGGAGTCCTCATTGGGTCTGCTATGGGTGGCATGAAGgtgcagattcttacattacatgatatac-ttgctgaaaag-atcgttttttaattagcttctcttctaattctattttgatcag----------------
upper sequence: PP1S60_261V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ25649 (Selaginella moellendorffii), 5'ss of exon 3
AAAAGCCGTAAAGGACGCTGGGATTACAGAAGATGTCATGAAAGACTTGGACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgttgcaaagactcaactcacctttctatacagtattctaccac-gatttgaactcctgtatagtgaaggtgtattaggattgtttactgtaaa--------------------------
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GAAAGCTGTAGCGGACGCTGGAATGACTCGGGACGTGATAGACCAGCTCGACAAGACGAAGTGCGGGGTTCTCATTGGTTCTGCAATGGGAGGCATGCAGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt-gtgtgtgaccactaaagtctctttctttctgttgttagtctactcttaactcttgtcgtggctctgtttttcccttgcgttgtgccag
upper sequence: PP1S60_261V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ12298 (Selaginella moellendorffii), 5'ss of exon 3
AAAAGCCGTAAAGGACGCTGGGATTACAGAAGATGTCATGAAAGACTTGGACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgt-tgcaaagactcaactcacctttctatacagtattctaccacgatttga--actcctg-----tatagtgaaggtgtattaggattgtttactgtaaa
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GAAAGCTGTAGCGGACGCTGGAATGACTCGGGACGTGATAGACCAGCTCGACAAGACGAAGTGCGGGGTTCTCATTGGTTCTGCAATGGGAGGCATGCAGgtgtgtgtgtgtgtgtgtgtgtgtgtcaccactaaagtctctttctttctgttgttagtctactcttaactcttgtcgtggctctgtttttcccttgcgttgtgccagMapped 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|162165435|gb|FC340871.1|FC340871EST: ACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAG GTATTTAATGATGCCATTGAGGCATTAAGGGTTTCCTACCGAAAGATGAAC
genomic: ACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgt ... ggtttgacagGTATTTAATGATGCCATTGAGGCATTAAGGGTTTCCTACCGAAAGATGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAAGCCGTAAAGGACGCTGGGATTACAGAAGATGTCATGAAAGACTTGGACAAGTCAAAATGTGGTGTCCTCATTGGTTCTGCAATGGGAGGAATGCAGgtgcgtgtgttgcaaagactcaactcacctttctatacagtattctaccacgatttgaactcctgtatagtgaaggtgtattaggattgtttactgtaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA