Sequence
atgc intronic sequence ATGC exonic sequenceGCAGCGTTGAACACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAGgtatgactttcccatggcaacaagtctactttgagatgttctgtctgattttggttttgcatccatctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G14260.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G14260.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G047695_T01 (Zea mays), 5'ss of exon 8
GCAGCGTTGAACACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAGgtatgactttcccatggcaacaagtctactttgagatgttctgtctgattt-tggttttgcatc--catctcag
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GCATCTTTAAATACAGAAGATCCTCAATACCAAGAAAAGAGAATGGTTGCTCAGAGGAATGGAAAACTTGCTATCCAAAATTTTAATgtgagaattttcccctttc-cttttctactg-aaattattaaatgttatatgctgatatgcctcgttgaatcag
upper sequence: AT5G14260.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G302195_T03 (Zea mays), 5'ss of exon 3
GCAGCGTTGAACACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAG-
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GCATCTTTAAATACAGAAGATCCTCAATACCAAGAAAAGAGAATGGTTGCTCAGAGGAATGGAAAGC-ATGCTATCCAAAATTTTAATgtgggaacttttttcctttttttagtgaaattgtaaatgttatatgttgatatgcctcgttgaatcag------
upper sequence: AT5G14260.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv14s0171g00310.t01 (Vitis vinifera), 5'ss of exon 8
GCAGCGTTGAACACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAGgtatgactttcccatggcaa---caagtctactttgagatgttctgtctgattttggttttgcatccatctcag-----
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GCAGCTCTTAACACTGAGGATCCTCAATATCAGGACAAGAGAATGGTTGCTCAAAGAAATGGAAAACTAACAGTGCAAAAATTTCATgtacaatgtcaagcttgcacactttatcttatcttgtgcttctttgtttt-ccttgttctttaatgtaccctgctgcagMapped 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|125040608|gb|EL112877.1|EL112877EST: AGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAG GTTCGTGTGGGA
genomic: AGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAGgtatgacttt ... tccatctcagGTTCGTGTGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGCGTTGAACACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAAGTATTTCAGgtatgactttcccatggcaacaagtctactttgagatgttctgtctgattttggttttgcatccatctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA