Sequence
atgc intronic sequence ATGC exonic sequenceCTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatatctcctggcgaatttcctgctttttacatcttcaggtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg...
Basic information
species | Physcomitrella patens |
transcript | PP1S147_62V6.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 7
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatatctcctggcg-aatttcctgctttttacatcttcaggtctgatgataccct-tgaactattactgagttgtgagcaagaaatgcttgggtgtg
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CTGGGAATGGTCATCTGACTCTGAGAGAGCTCAAACGTGGAAATTTAATTGCTGCACTTCAGCAGTTAGATGAGGAAGAAGATATCAACAAAGTGTTGAGgtaatcaattgttagaatacaattgtttggaactggttggtgcatgcaacttaatatggtatcaaacctagatgtcttgagttcaaatcctggttag-cgc-
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G104254_T02 (Zea mays), 5'ss of exon 3
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtg---agtatatctcctggcga--atttcctgctttttacatctt-caggtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg
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CTGGGAATGGCCATCTGACTCTCAGAGAGCTCAAACGTGGAAATTTAATTGCTGCACTTCAGCAGTTAGATGAGGAAGAAGATATCAACAAAGTGTTGAGgtaattaatatatgacttgctaacagattgccgctgcctatccattatccctccgttcataaatatatgacactgttgactttttta-aaaaactgaccac-----
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GLYMA10G30930.1 (Glycine max), 5'ss of exon 7
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatatctcc----tggcgaatttcctgcttt---ttacatcttcag-----gtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg-
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CTGGAAATGGTCGTCTCACCCTGAGGGAGCTGAAGCGTGGAAACATAATTGATGCAATGCAGCATGCCGATGAAGAAGAAGATATCAACAAAGTTTTGAGgtagatatactatcattatcattaaattcacacaatgactctgtttttcagccaaaatatattgataccagaatgcattgagtgtttttactttacctaataattgtctgtag
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 5'ss of exon 7
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtg--agtatatctcctggcgaatttcctgctttttacatcttcaggtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg
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CTGGCAATGGTCGAATTACATTTAGGGAGCTTAAACGGGGAAACTTAATTGATGCTATGCTACATGCTGATGAAGAAGAAGATATTAACAAAGTGTTGAGgtactgacaaaaatatttgcgtgcta-----ttgttgtatttatagtattgtttttgctcatttaacatcacttttctattcactttggcaattag------
upper sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 6
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatatctcctggcgaatttcctgcttt-ttacatcttcaggtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg
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CTGGCAATGGTCGAATTACATTTAGGGAGCTTAAACGGGGAAACTTAATTGATGCTATGCTACATGCTGATGAAGAAGAAGATATTAACAAAGTGTTGAGgtactgacaaa----aacaaatttgtgctattgttgtatatatggtattgtttctgctcatttaacatgacttttctacttactttggcaaatag------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|162193203|gb|FC369963.1|FC369963EST: ACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCG GTACTTCTCATATGAACATTTTTATGTCATATATTGCAAATTCTGGGAGCT
genomic: ACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatat ... cttcgtgcagGTACTTCTCATATGAACATTTTTATGTCATATATTGCAAATTCTGGGAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGGGAATGGTCGGCTACAACTTAGAGAGTTAAAACGGAGTAACTTAATTACTGCTCTTCAGCAAGTGGATGAAGAAGAAGATATCAACAAAGTGTTGCGgtgagtatatctcctggcgaatttcctgctttttacatcttcaggtctgatgatacccttgaactattactgagttgtgagcaagaaatgcttgggtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG