Sequence
atgc intronic sequence ATGC exonic sequenceGATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtagaattttgttgggttatcatctacccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac...
Basic information
species | Physcomitrella patens |
transcript | PP1S2_217V6.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S2_217V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 5'ss of exon 5
GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatg---tagaattttgttgggttatcatcta----cccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac
|| || || |||| |||||| ||||| | |||||||||| || || || |||| ||||||||||||||| |||||| | ||||| ||||| ||||||||| | || | || | || | || | ||| | | ||||||| || | | || ||||
AATCGGTCCCTATGGGCTTTCCATCATCCGTCATGTCCATGGAACAAAAGCAATTGCTGAATTTGGAGTTGTTTTCTTGTTGTTCAACATTGGCCTTGAGgtagaaactgagtttcttttagattctttccttaatcctcatgcaggatatatcagctta--ccattttttacctgcag----------------------------
upper sequence: PP1S2_217V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 5
GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtag--aattttgttgggttatcatctacccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac
||||| ||||||| ||| || ||||| | ||||| |||| ||| ||||| |||| |||||||||||||| ||||| ||||| || ||||| ||||||||| || || | || || || | | | || | || || || | | | | | ||||
CATTGGTCCATATGGGCTGTCCATCATCCGTAATGTGCATGAGACAAAGGCAATTGCGGAATTTGGAGTTGTGTTCTTACTATTTAACATTGGACTTGAGgtacacagctaagtgcctttggatactgtttcttctttcagcaaatactggcttaatatcc--tgcacctgcag----------------------------
upper sequence: PP1S2_217V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GLYMA18G46420.1 (Glycine max), 5'ss of exon 12
GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtagaattttgttgggttatcatctacccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac--------
||||||||| |||| || || ||||||| | || |||||||| || || | | ||||||||||||||| ||| | |||||||||||||| || ||||| | ||| | | ||| | | | || | || | || |||| | |||| |||| | ||| | |
GATTGGGCCTTATGGTCTCTCTATCATTCGTCACGTTCATGGGACAAAAGCAGTAGCTGAATTTGGAGTTGTTTTCCTTCTATTCAATATTGGCCTGGAGgtg---gggattcttattagttctggttcagttgttctatgttaactttgtccatcaccattatcgaaagagctaa-attgaggctcttatttgcttttttgttttag
upper sequence: PP1S2_217V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 4
GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtagaattttgttgggttat-catctacccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac--
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GATTGGTCCTTATGGTCTCTCAATAATTCGTAATGTGCATGGAACCAAGGCCATTGCAGAATTTGGAGTTGTCTTCTTGCTTTTCAACATTGGCCTTGAGgtt-----aacttcagtatttgatatatatgttgttcctttttcctttgatatgtgcttagtggaaagaagagccaattatttcgattctatttgtctgacag
upper sequence: PP1S2_217V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 5'ss of exon 3
GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgta---tgtagaattttgttgggttatcatctacccattgtgattttatcagcatattctacattc-cgattgcaactaatattgtagtctttaccaacgtaac--
||||||||| |||| || || || |||| |||| |||||||| || || |||| |||||||||||||| ||||||||||| ||||||||||||||||| | | || | || | | | || || | | | || |||| || || | || || |||| | | | | | | |
GATTGGGCCTTATGGTCTCTCTATTATTCGTCATGTACATGGGACCAAAGCGATTGCAGAATTTGGAGTTGTTTTCTTGCTATTTAATATTGGTCTTGAGgtggactccataaaatctttatttctttttttatttgttaatctaagacaatgatgttctttataaatgaataaaaaaaaaattgaaccttctgtctgcattgcagMapped 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|162256774|gb|FC432668.1|FC432668EST: CCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAG TTGTCGGTGGAGAGACTGAGCTCCATGAAGAAGTATGTATTTGGATTTGGC
genomic: CCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtagaa ... atttttgcagTTGTCGGTGGAGAGACTGAGCTCCATGAAGAAGTATGTATTTGGATTTGGC
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
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GATTGGGCCATATGCGCTTTCAATCATTCAGAATGTCCATGGGACGAAGGCCATTGGTGAATTTGGAGTTGTATTCTTGCTATTCAATATTGGTCTTGAGgtatgtagaattttgttgggttatcatctacccattgtgattttatcagcatattctacattccgattgcaactaatattgtagtctttaccaacgtaac
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