Sequence
atgc intronic sequence ATGC exonic sequenceATGCTGTCGTCAAAGGACGTGAACTTTGTAGGGTACACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttcttggacatggttcgaatttcatgaagaattaccagagactgatattctttagaggagttcaattttttgcatgttggttgtttaccctgtttattgaaattatacttatttgttcaccaagctagattgttgtggactagttctcatcaacatattttgaacatgcacag
Basic information
species | Physcomitrella patens |
transcript | PP1S22_429V6.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 5'ss of exon 11
ATGCTGTCGTCAAAGGACGTGAACTTTGTAGGGTACACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttcttggacatggttcgaatttcatgaagaattaccagagactgatattctttagaggagttcaattttttgcatgttggttgtttaccctgtttattgaaattatacttatttgttcaccaagctagattgttgtggactagttctcatcaacatattttgaacatgcacag
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ATGCTGTCTTCAAAGGATTTGAATTTTGTGGGCTACACGTACAAGAACTTCGAACTTGTGAATGATCCTGAAGTACTTGGAATGGgtactctactccccat--------cttctcaataagtaacca-----tgtttctttctcgagaatatca----------tagtaccagtgcaaacc---taatgacatagagcatgtctcttc--cag--------------------------------------------------
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: EFJ16108 (Selaginella moellendorffii), 5'ss of exon 11
ATGCTGTCGTCAAAGGACGTGAACTTTGTAGGGTACACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttcttggacatggttcgaatttcatgaagaattaccagagactgatattctttagaggagttcaattttttgcatgttggttgtttaccctgtttattgaaattatacttatttgttcaccaagctagattgttgtggactagttctcatcaacatattttgaacatgcacag
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ATGCTTCCTTCCAAGGACGTCAACTTTGTTGGCTACACGTACAAGAACTTCGAGATCATCCAAGACTCGCAATTGCCCGGTGTTGgtacgtcaatgt-cacctcttttatctcttccagtttcttactccctcgcaattgctcgacacag-----------------------------------------------------------------------------------------------------------------
upper sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: EFJ08009 (Selaginella moellendorffii), 5'ss of exon 11
ATGCTGTCGTCAAAGGACGTGAACTTTGTAGGGTACACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttcttggacatggttcgaatttcatgaagaattaccagagactgatattctttagaggagttcaattttttgcatgttggttgtttaccctgtttattgaaattatacttatttgttcaccaagctagattgttgtggactagttctcatcaacatattttgaacatgcacag
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ATGCTTCCTTCCAAGGACGTCAACTTTGTTGGCTACACGTACAAGAACTTCGAGATCATCCAAGACTCGCAATTGCCCGGTGTTGgtacgtcgatgt---cacctcttatctcttccagt-ttcttactccctcgcatttgctcgacacag----------------------------------------------------------------------------------------------------------------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|37849883|gb|BJ607891.1|BJ607891EST: CACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCG CGGAGTTGAAGAAGAAAGGAAAGTCAAAGAGGCCATCCATCAAGACACTCT
genomic: CACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttctt ... acatgcacagCGGAGTTGAAGAAGAAAGGAAAGTCAAAGAGGCCATCCATCAAGACACTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCTGTCGTCAAAGGACGTGAACTTTGTAGGGTACACGTACAAGAATTTCGAGATTGTCCAGGATGCAAATGTTCCGGGCATCGgtaggttcttggacatggttcgaatttcatgaagaattaccagagactgatattctttagaggagttcaattttttgcatgttggttgtttaccctgtttattgaaattatacttatttgttcaccaagctagattgttgtggactagttctcatcaacatattttgaacatgcacag
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