Sequence
atgc intronic sequence ATGC exonic sequencegttagaagctttggacattttcttcttaaaagaaacacatactgcaagtatacaatggtattggttttgcattcttaacttattttttttctttaactcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTGATGTGAGGGATAAGCTGTATCACACACGTGAGCGTTCCCGCCAATTGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14940.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 6
gttagaagctttggacattttcttcttaaaagaaacacatactgcaagtatacaatggtattggttttgcattcttaacttattttttttctttaactcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTGATGTGAGGGATAAGCTGTATCACACACGTGAGCGTTCCCGCCAATTGCT
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----gtaaatatcgac-tacccattttaatagtgatggctatctgttatgattgacaatgttggcataatatcgtttccttgttcgtctt--------------agAATTCTGGAAGAAGGTTCCGCCCAGTGAGCCATACCGAGTTGTTCTAGGTGATGTGAGAGACAAGCTGTACAACACACGTGAACGAGCACGCCAGTTATT
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 6
gttagaagctttggacattttcttcttaaaagaaacacatactgcaagtatacaatggtattggttttgcattcttaacttattttttttctttaactcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTGATGTGAGGGATAAGCTGTATCACACACGTGAGCGTTCCCGCCAATTGCT
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-ttattttcttcaga-agtttcttgctgaataccatgga-gttgattgtttgggtgaatgtttctaat-caatctca--ttaatgcttgtgttctgatctatgcagAATTCTGGAAACAGGTTCCTCCAAGTGAGCCCTATCGTGTTATTCTTGGTGATGTGAGGGACAAACTATATAGTACACGTGAACGTTCTCGCCAGTTATTMapped 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|47828699|gb|CK118383.1|CK118383EST: GGATGAACTGCACAGGAACTCAAGGAAAGATGCTGCAAAACATTACATAG AATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTG
genomic: GGATGAACTGCACAGGAACTCAAGGAAAGATGCTGCAAAACATTACATAGgttagaagct ... ctcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatggtattggttttgcattcttaacttattttttttctttaactcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTGATGTGAGGGATAAGCTGTATCACACACGTGAGCGTTCCCGCCAATTGCT
cttattttttttcttt CT-rich tract
attcttaacttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagaagctttggacattttcttcttaaaagaaacacatactgcaagtatacaatggtattggttttgcattcttaacttattttttttctttaactcaatgcagAATTCTGGAAGACAATTCCTCCAACTGAGCCATACCGTGTGATTCTTGGTGATGTGAGGGATAAGCTGTATCACACACGTGAGCGTTCCCGCCAATTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG