Sequence
atgc intronic sequence ATGC exonic sequencegtacttgtgtttgtttaagtatagatatcaatctgtatttgagatagtttgagaatgtgaacaagtctgaggatttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G48470.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 4
---------------gtacttgtgtttgtttaagtatagatatcaatctgtatttgagatagtttgagaatgtgaacaagtctgagg---atttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
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gttctttattaaattatttccatgtctttcaagataagcctctttaattcttattgctactgtccggttaattgtttggtgctgggccatatctttgcagGCAATGGAAACTCGTCCTGTTATCCCAGATCGAAAACTACTTGCAAGGCTTGTTTTGATTAGAGAAGAAGCTCGTAATATGATGGGAGGGGGAATTACGG
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 4
---------------gtacttgtgtttgtttaagtatagatatcaatctgtatttgagatagtttgagaatgtgaacaagtctgagg---atttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
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gttctttattaaattatgcccatgtctttcaagataagcttctttaattcttattgctactgtctggttaaatgtttggtgctgggccatatctttgcagGCAATGGAAACTCGTCCTGTTATCCCAGATCGAAAACTACTTGCAAGGCTTGTTTTGATCAGAGAAGAAGCTCGTGATATGATGGGAGGGGGAATTATGG
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------gtacttgtgtttgtttaagtatagatatcaatctgtatttgagatagtttgagaatgtgaacaagtctgaggatttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
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caaagtgccccttttggtgaaatatacagatatcc-cccaaacaaagcaatttttatgtatttttaatcatcctatatactacatcaatttt----tttttgcagACAATGGAAACTCGCCCAGTTGTTCCTGATCGAAAGCTACTTGCAAGACTGGTTTTGATCAGAGAGGAAGCCCGGAATATGATGGGAGGTGGAATACTAGMapped 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|86078170|gb|DR373927.1|DR373927EST: GAGCAAATCTGAATGACATAGCTAATCAAGCTGATGACTTGCTAGAG ACTATGGAAACNAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTT
genomic: GAGCAAATCTGAATGACATAGCTAATCAAGCTGATGACTTGCTAGAGgtacttgtgt ... atttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatctgtatttgagatagtttgagaatgtgaacaagtctgaggatttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
tttttgc CT-rich tract
attttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgtgtttgtttaagtatagatatcaatctgtatttgagatagtttgagaatgtgaacaagtctgaggatttttgcagACTATGGAAACAAGGCCAGCTATTCCGGATCGAAAACTACTAGCGAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG