Sequence
atgc intronic sequence ATGC exonic sequenceTGAGCTCACTCATGTTAAGGAGCTTATCAAATGGGGAACTGATTACTTTCTCAAGACTTTCAATAGTACTGCTGATTCCATTGATGATCTTGTGTCACAGgtacttgtttatgaccttcgtaggagatctttcatattgagttgtttgttcactcgttacatgtttaatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G49720.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G02160.1 (Glycine max), 5'ss of exon 2
TGAGCTCACTCATGTTAAGGAGCTTATCAAATGGGGAACTGATTACTTTCTCAAGACTTTCAATAGTACTGCTGATTCCATTGATGATCTTGTGTCACAGgtacttgtttatga-----ccttcgtaggagatctttcatattga-gttgtttgttca-ctcgttacatgtttaatgtag--------------------
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GGAGCTTGAACATGTTAAGGAGATCATTAAGTGGGGTACTGATTATTTTCTCAAGAGTTTCAATAGTACTGCTGACACCATCACCACCCTTGCTGCTCAGgtatccatccatgatccacccctccttctttttgttttttattcatattcttgatttatctcattaagtgatttgcttgccaaggatcgatcgttctagt
upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 5'ss of exon 2
TGAGCTCACTCATGTTAAGGAGCTTATCAAATGGGGAACTGATTACTTTCTCAAGACTTTCAATAGTACTGCTGATTCCATTGATGATCTTGTGTCACAGgtacttgtttatgaccttcgtaggagatctt-----tcatattgagttgtttgttcactcgttacatgtttaatgtag----------------------
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GGAGCTCAACCATGTCAAAGAGATAATCAAGTGGGGAACTGATTACTTTCTCAAAACTTTCAATTCTTCTGCTGATACCATAGACAGGATGGTTGCACAGgtaaatttatacctgtggtttagccaatttagttagctacatgaagatagcttgttgttttttgtttccttttagtcttccaggatatatccatttttcaMapped 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|125284716|gb|EL298801.1|EL298801EST: CTGCTGATTCCATTGATGATCTTGTGTCACAG GTTGGATCAGGGAATACTGATGATGGAAATACAGATCCTAATGACCATTAC
genomic: CTGCTGATTCCATTGATGATCTTGTGTCACAGgtacttgttt ... tttaatgtagGTTGGATCAGGGAATACTGATGATGGAAATACAGATCCTAATGACCATTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGCTCACTCATGTTAAGGAGCTTATCAAATGGGGAACTGATTACTTTCTCAAGACTTTCAATAGTACTGCTGATTCCATTGATGATCTTGTGTCACAGgtacttgtttatgaccttcgtaggagatctttcatattgagttgtttgttcactcgttacatgtttaatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT