Sequence
atgc intronic sequence ATGC exonic sequenceGATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgtaagttctttctctgctctttatgctgcttgtccttggggttggtagaaacaatttccctgtgtttgttaaattctgctccttatacgttatatcggtttgtgaattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04850.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g01250.1 (Oryza sativa), 5'ss of exon 5
GATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgta-agttctttctctgctctttatgctgcttgtccttggggttggtagaaacaatttccctgtgtttgttaaattctgctccttatacgttatatcggtttgtgaattcag
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GAGATGATGGATCTTATGGATGTGAGCAATGAAATACAGGAAACTCTCGGAAGAAGCTACAATGTCCCTGATGACATTGACGAGGAAGAACTTATGGGGGgtatggatcttatttttcagttttcttagattatact--ggcaccacaaaaatgtttgccttgaagttatgcagtcaacttgttttttctccccacaattct----------
upper sequence: AT5G04850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G33960.1 (Glycine max), 5'ss of exon 5
GATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgtaagttctttctctgctctttatgctgcttgtccttggggttggtagaaacaatttccctgtgtttgtta--aattctgctccttatacgttatatcggtttgtga-attcag-------------------------------------------------------------------------------------
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GAGATGATGGACCTCATGGATGTAAGTAATGAAATTCAAGAGACTTTGGGTAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaaaatttggt---taggaagcttgagat---atttgttggaaatcattttcaaaaactcctagctaacatggctccata---gttgggcagggtagtgggattttgtggctgtgatgaaaattgttttttgttgttgtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacag
upper sequence: AT5G04850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G33630.1 (Glycine max), 5'ss of exon 5
GATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgtaagttctttctctgctctttatgctgcttgtccttgggg-ttggtagaaacaatttccctgtgtttg--ttaaattctgctccttatacgttatatcggtttgtgaattcag------------------------------------------------------------------------
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GAGATGATGGACCTCATGGATGTAAGTAATGAAATCCAAGAGACTTTGGGTAGAAGCTATAATGTGCCTGATGACATTGATGAGGATGACCTTATGGGTGgttagtaatcttgagatatttgttggaaaccattttcaaaaactcctagttaacatggctccacagttggctagggtagtgggattttgtggctgtgatggaaattgtttttatttttctttggttgttgtcatgaagtgtggtttgaattacctgtttctttattttttggttttggtaaaacag
upper sequence: AT5G04850.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv08s0007g02300.t01 (Vitis vinifera), 5'ss of exon 5
GATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgtaagttctttctctgctctttatgctgcttgtccttggggttggtagaaacaatttccctgtgtttgttaaattctgctccttatacgttatatcggtttgtgaattcag---------------------------------------------------------
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GAGATGATGGACCTGATGGATGTAAGCTCAGAAATTCAAGAATCCCTTGGCAGAAGTTACAATGTGCCAGATGACATTGATGAGGATGACCTCATGGGCGgtatgcttaaattgtattcat-atgtcatggaactttggaatggatgctaagagaatgttgcattttcttcagtatccttgcttgtcacgagggtcagcaaagggttctccccccttcttttaattttatagatttattgttttatgtccctcttttttcccctgcagMapped 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|125033835|gb|EL106104.1|EL106104EST: TTGACGAAGATGACCTCCTGGGCG AGCTTGATGCTCTTGAAGCTGACATGGGGAACGAGACTGAAGCAGACGGAG
genomic: TTGACGAAGATGACCTCCTGGGCGgtaagttctt ... gtgaattcagAGCTTGATGCTCTTGAAGCTGACATGGGGAACGAGACTGAAGCAGACGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATATGATGGACTTAATGGATGAGAGTTCTGAAATTCAAGAGACACTTGGTAGGAGCTACAATGTTCCTGATGACATTGACGAAGATGACCTCCTGGGCGgtaagttctttctctgctctttatgctgcttgtccttggggttggtagaaacaatttccctgtgtttgttaaattctgctccttatacgttatatcggtttgtgaattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG