Sequence
atgc intronic sequence ATGC exonic sequencegtagaattatcacccctgctttgtatggtcatttaacaatgtttcattaaaaatatttggtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32120.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G32180.1 (Glycine max), 3'ss of exon 4
-gtagaattatcacccctgctttgtatggtcatttaacaatgtttcattaaaaatatttggtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
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gatgggaatgtaaacacttgactattttgtagatggttatctttttggttcaattgtatattactaagtcactgacatcttatctt----ctcttttctggc-agGTGATGCCTTGAAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 4
-gtagaattatcacccctgctttgtatggtcatttaacaatgtttcattaaaaatatttggtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
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gatgagaatgtaaacacttgactattttgtagatggttatctttttggtttaattgtatattgcc---tagtcactgacatcttatct--tctcttttctggcagGTGATGCCTTGAAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 4
gtagaatt--atcacccctgctttgtatg-gtcatttaacaatgtttcattaaaaatatttg-gtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
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gcttaattgcataggtttcagattgtgtgcagtggctatcaagaatctatgcattgagtttacaaacaatatatcatgtgaagtttcatggcttttgcagGT-----GAGGAAGCTTTAAAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAGMapped 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|19878363|gb|AU239194.1|AU239194EST: TGGAAGTCACTTGAAGCGCAATAAATTTAGAGGCTCTTGGATGCCACGAG ATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGA
genomic: TGGAAGTCACTTGAAGCGCAATAAATTTAGAGGCTCTTGGATGCCACGAGgtagaattat ... ttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatatttggtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
tttacttct CT-rich tract
aatatattaagtattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaattatcacccctgctttgtatggtcatttaacaatgtttcattaaaaatatttggtacaatatattaagtattctcttatgaaatttacttctatttagATGATGCTCTTAAAAAACTTGAGGAAAGAGGAGTTGTCATACGCTTTGTGATTGGTCGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG