Sequence
atgc intronic sequence ATGC exonic sequenceATAGATAAAGAAGGAGCTAGTCCAGATAGAGTGATGCAAGAGCTTTCTTCAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatacatactttcatcacgtatatgttttagggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17220.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G18580.1 (Glycine max), 5'ss of exon 6
ATAGATAAAGAAGGAGCTAGTCCAGATAGAGTGATGCAAGAGCTTTCTTCAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatacat--------actttcatcacgtatatgttttagggtcca--aatgttccatgggttctcatatcatgctctatatttgcctttgacag
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ATAGATAAAGATGGAGCAAATCCAGAACGAGTCATGCAAGAGCTTTCTTCAATTGGTTTAATGCCAGAAGACTGGGGTGGTGACATCCCAATGGTTCCGgttagtatttcttatttgtcgctatcattttgtatcctgtttatgatttattaactttcaagaagttatatttttctcttgttctcttatgtccaacag
upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G40370.1 (Glycine max), 5'ss of exon 5
ATAGATAAAGAAGGAGCTAGTCCAGATAGAGTGATGCAAGAGCTTTCTTCAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaata-catacttt-------catcacgtatatgttttagggtcca--aatgttccatgggttctcatatcatgctctatatttgcctttgacag
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ATAGATAAAGATGGAGCAAATCCAGAAAGAGTCATGCAAGAGCTTTCTTCAATTGGTTTAATGCCAGAAGACTGGGGCGGTGACATCCCAATGGTTCCGgtttgtatttcttattttttgctaccattttgtatcctgtttatgcttttttaactttcaagaaattatatttttctctcgttctcttatgtccaacag
upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0027g00130.t01 (Vitis vinifera), 5'ss of exon 5
ATAGATAAAGAAGGAGCTAGTCCAGATAGAGTGATGCAAGAGCTTTCTTCAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatacatactttcatcacgtatatg----ttttagggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacag
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ATAGATAAGGATGGAGCTAACCCAGAACGAGTCATGCAAGAGCTTTCGTCTATTGGTCTAATGCCAGAAGATTGGGGTGGTGATATCCCAATGGTTCAGgtctttatttattagtagaaagtgtacttgcatctttcttggttctta-atcccttgtatacctatttgattttct---tctatccctaacagMapped 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|47831587|gb|CK121271.1|CK121271EST: CAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAG ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATG
genomic: CAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatac ... cctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAGATAAAGAAGGAGCTAGTCCAGATAGAGTGATGCAAGAGCTTTCTTCAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatacatactttcatcacgtatatgttttagggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA