Sequence
atgc intronic sequence ATGC exonic sequenceAAAGCTGAAGAGTCGTGCATGGATTATGGGTTTCATATGGCAATCTCCAAATGGAATGATGATGTTGCTAAGGATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacccatttaaatctctgtgtatcacccgattctagcctttgattgttaggatttttgttcgtgatgcagatggaaaagcagcctgttgaaagc...
Basic information
species | Physcomitrella patens |
transcript | PP1S101_168V6.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S101_168V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: LOC_Os01g59340.3 (Oryza sativa), 5'ss of exon 7
AAAGCTGAAGAGTCGTGCATGGATTATGGGTTTCATATGGCAATCTCCAAATGGAATGATGATGTTGCTAAGGATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacccatttaaatctctgtgtatcacccgattctagcctttgattgttaggatttttgttcgtgatgcagatggaaaag--cagcctgttgaaagc--
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AAGGCAGAAAAATCTGCCATGGATTATGGATTTCATATGGCCATTACAAAGTGGAATGATGATGTTTCGAGGGAAATGGAAACGATGGTTAAGGAACATGgt-cagtacttctttttgtg-ctgtcagttattttcatcagaaataagaaattcc--attctggttcatgaagcaactcctatgtttcaacctgaaatcaactt
upper sequence: PP1S101_168V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA02G44690.1 (Glycine max), 5'ss of exon 4
AAAGCTGAAGAGTCGTGCATGGATTATGGGTTTCATATGGCAATCTCCAAATGGAATGATGATGTTGCTAAGGATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacccatttaaatctctg-tgtatcacc--cgattctagcctttgattgttaggatttttgttcgtgat-gcagatggaaaagcagcctgttgaaagc
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AAGGCAAAGAAGTCTTGCATGGATTATGGTTTTCATATGGCTATTACCAAATGGGATGAAACTGTTTCCAGAGAAATGGAGCTCATGGTTAAGGAGAAAGgt-tgttattttattatttccttgatgcatttttgataatttggttgattgggtggtacatctatgttttgtaattgcag------------------------
upper sequence: PP1S101_168V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 4
AAAGCTGAAGAGTCGTGCATGGATTATGGGTTTCATATGGCAATCTCCAAATGGAATGATGATGTTGCTAAGGATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacccatttaaatctctgtgtatcacccgattctagcctttgatt--gttaggatttttgttcgtgatgcagatggaaaagc-------agcctgt-tgaaagc---------------------------
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AAAGCGAAAAAATCTTGTATGGATTATGGTTTTCATATGGCAATCACAAAATGGGATGAAAATGTTTCAAGGGAGATGGAAATCATGGTTAAGGAGAAAGgttagctgtttttttcaagtttattataataactctacatagattatgacttgatctacattggcaaatgtaaaccccatttggattcttctctaaatctgtatgaaatccttacttgtcttcttttcaacttacagMapped 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|18347661|gb|BJ179708.1|BJ179708EST: TGGAATGATGATGTTGCTAAGGGATATGGATTGGCTTGTCAAAGAGAAAG GGATCAACTCCTTCAAGTTCTTCATGGCTTACAAGGGCTCATTGATGG
genomic: TGGAATGATGATGTTGCTAAGG-ATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacc ... atctgtacagGGATCAACTCCTTCAAGTTCTTCATGGCTTACAAGGGCTCATTGATGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGCTGAAGAGTCGTGCATGGATTATGGGTTTCATATGGCAATCTCCAAATGGAATGATGATGTTGCTAAGGATATGGATTGGCTTGTCAAAGAGAAAGgtacaccacccatttaaatctctgtgtatcacccgattctagcctttgattgttaggatttttgttcgtgatgcagatggaaaagcagcctgttgaaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA