Sequence
atgc intronic sequence ATGC exonic sequenceGTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S83_234V6.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S83_234V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 6
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgt--cagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
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GTCAATCCTTCAGATGTAATTATTTTGGAAGGAATTCTGGTTTTCCATGATTCACGTGTCCGGGATTTGATGAACATGAAGATCTTTGTTGACACAGgtatcaatatttgca--tgccaaactgtcttat-tatctctagctcttgccc--atgacca------gtaatcatcagttgtacgtgtggtcagtatgattatttccatat--------------------------------------------------------------------------------
upper sequence: PP1S83_234V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA18G08180.1 (Glycine max), 5'ss of exon 6
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
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-TGAACCCTTCAGATGTTATAATTTTAGAAGGCATCCTTGTTTTCCATGATCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGGtcc---tttattattgttattccatctt---taactcagaattta--tttattgtaagtttgttgttgtatttgttaatttataagggaaatggtccatcttttatct--------------------------------------------------------------------------------
upper sequence: PP1S83_234V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
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GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtc--ctttattattgtttttccatctttaattcagaatttattt--ttttattgtaaattttcagttgtatttgttagtttgt-aagggatatggttcatcttt------------------------------------------------------------------------------------
upper sequence: PP1S83_234V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 6
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
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GTCAACCCTTCAGATGTGATAATTTTGGAAGGCATACTCATTTTTCATGATCTTCGTGTCCGGGAATTGATGAACATGAAGATATTTGTTGATACAGgttctttctttctgcctttactgcagaatgt-caattcttgtacttggtcttgtcttatttattaatagcttttgtc-----caggcatgaactgtgcttttagtc-----------------------------------------------------------------------------------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|100389779|gb|BY971131.1|BY971131EST: TGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAG ATGCTGATGTGAGGCTAGCGAGGAGGATAAGACGGGACACTCTGGAGAGAG
genomic: TGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattg ... tgcagtgcagATGCTGATGTGAGGCTAGCGAGGAGGATAAGACGGGACACTCTGGAGAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA