Sequence
atgc intronic sequence ATGC exonic sequencegtacaacaaaatacatccaaagtttctttataagaatcggtttaacctcggtttgatattaaaccgtttatcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G30340.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G30340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G22370.1 (Glycine max), 3'ss of exon 4
--------------------gtacaacaaaatacatcca-aagtttctttataagaatcggtttaacctcggtttgatattaaacc---gtttatcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
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aactttgatcagaactattattattgttataaatatatacgactgttatcattagcatca-tttggcat--gtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
upper sequence: AT4G30340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G30040.1 (Glycine max), 3'ss of exon 4
----------gtacaacaaaatacatccaaagtttctttataagaatcggtttaacctcggtttg---atattaaaccgtttatcg--------ttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
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gtttgctaacatgaatcagttttctttgattttgttctaattggtaactcattagcatcttttggtatgtgtaaaattgactatagaggtctaattttagGCAACAGCTATTCGATTGGAAGTTAGAGGTGGGGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCCTGGAAACAACCTATGAGCAAGGACTTCT
upper sequence: AT4G30340.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 11
-------------gtacaacaaaatacatccaaagttt-ctttataagaatcggtttaacct------cggtttgatattaaaccgtttat-cgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
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gtcttggtctccattgtttctttatattgccattatttacattgtgaaaatttgtctttctcaatgaccagccccactggtttctatttatatctttcagGCATCAGCTATTCGATTGGAAGTCAGAGGTGGACAGTGGAAAAATGCATATATGCAAATGGATGGAGAACCTTGGAAACAACCATTGAGCAAGGACTTCTMapped 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|124985189|gb|EL057795.1|EL057795EST: GCTAAGCACATTGCTCAG GCGGCNGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTC
genomic: GCTAAGCACATTGCTCAGgtacaacaaa ... atcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttataagaatcggtttaacctcggtttgatattaaaccgtttatcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
tcgtttt CT-rich tract
tttgatattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaacaaaatacatccaaagtttctttataagaatcggtttaacctcggtttgatattaaaccgtttatcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA