Sequence
atgc intronic sequence ATGC exonic sequencegtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgttgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
Basic information
species | Physcomitrella patens |
transcript | PP1S195_46V6.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S195_46V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
gtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgttgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
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gtggtgttcttagatgtctttgac-tttcctcatgagattttgtatt---tattgttttcacccgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
upper sequence: PP1S195_46V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 8
gtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgt-tgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
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------------------------------------gtgtgaactcaaggagtgtcttcttatttctgacg---------ctttt----ttccgttt-cagGATACTTGCAACAGGAAGAGCAATCAACAAAATCTGGGGACTATCAAGTGCTCAAATCTCTGCACTGAGATTGTGGAATATACCAGTCCCTCTGAGACAG
upper sequence: PP1S195_46V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ20157 (Selaginella moellendorffii), 3'ss of exon 8
gtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgt-tgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
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------------------------------------gtgtgaagtcaaggagtgtcttcttatttctga-------------tgcttttttccgttt-cagGATACTTGTAACAGGAAGAGCAATCAACAAAATCTGGGGACTATCAAGTGCTCAAATCTCTGCACTGAGATTGTGGAATATACCAGTCCCTCTGAGACAGMapped 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|162268643|gb|FC443697.1|FC443697EST: CCGTTCTGGAGGCCCAGATTGAAACGGGGAATCCGTACATTCTCTTCAAG GATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCA
genomic: CCGTTCTGGAGGCCCAGATTGAAACGGGGAATCCGTACATTCTCTTCAAGgtactttctt ... ctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagacgttgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
ataat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgttgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG