Sequence
atgc intronic sequence ATGC exonic sequenceAAGTCGCGGACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAGgtacgtgacctttttcaatttcattgcttctggtttggatcctctgactaaatctgtttgagttcgttttcgggttttgactttatgaggctaccggctg...
Basic information
species | Physcomitrella patens |
transcript | PP1S6_409V6.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S6_409V6.3 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 1
------------------------------------------AAGTCGCGGACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAGgtacgtgacct-ttttcaatttcattgcttctggtttggatcc-tctgactaaatctgtttgagttcgttttcgggttttgactttatgaggctaccggctg
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ACATATAATACCTCATCTTTCTCTTTCAATTTCTCTCTTCGCTTTTTTTTGATT-CACACACAATGGGTCTCTGGGATTCCTTCCTCAATTGGCTCCGCAGgtaaacctcttatccacaatactactatttgttcattatatatatatatatatatatatatatatatatatatatatatata-tatatatatatatatatt-
upper sequence: PP1S6_409V6.3 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA14G39540.1 (Glycine max), 5'ss of exon 1
AAGTCGCGGACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAGgtacgtgacctttttcaatttcattgcttctggtttggatcctctgactaaatctgtttgagttcgttttcgggttttgactttatgaggctaccggctg--
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---------------------ATGGGTCTCTGGGATTCCTTCCTCAATTGGCTCCGCAGgtaaac--ctcttctccgcaatactactatttttttgtactttttttcccaatattattatctctcgaatttcatcccaacttttgggatatgctttattcaMapped 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|67577659|gb|BJ949826.1|BJ949826EST: ACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAG CCTGTTCTTCAAGCAAGAGATGGAGCTGTCGCTGATAGGTCTGCAGAACGC
genomic: ACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAGgtacgtgacc ... tgtgcggcagCCTGTTCTTCAAGCAAGAGATGGAGCTGTCGCTGATAGGTCTGCAGAACGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGTCGCGGACTGCGAAGATGATGGGAATATGGGATTCGTTCCTCAATTGGCTCCGCAGgtacgtgacctttttcaatttcattgcttctggtttggatcctctgactaaatctgtttgagttcgttttcgggttttgactttatgaggctaccggctg
- - - - - - CGAAGA
- - - - - - - AAGATG