Sequence
atgc intronic sequence ATGC exonic sequenceAAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattctattatttttctgtttaatccatcatttacgcacatgcacttatcatatatatgtttttaacgaaaaaattgatttggtaacttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01420.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G01480.1 (Glycine max), 5'ss of exon 3
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgt-caatt----ctattatttttctgtttaatccatcatttacgcacatgcacttatcatatatatgtttttaacgaaaaaattgatttggtaacttag
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GACATACAAGGACACTGGGAAGCAATTCAATGTGATAGCAGCTTCTTGGATTCAGTTTATGATTCATGATTGGATCGATCATCTAGAGGACACCAATCAGgtgcttataattatacttagtatagcgataattaaattttcaaacatttaaaaaaacacttttcaaaaaattatttaataggaag--tgagttggtcacaat-
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G01470.1 (Glycine max), 5'ss of exon 3
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattctattatttttctgtttaatccatcatttacgcacatgcacttatcatatatatgttttta-acgaaaaaattgatttggtaacttag--
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GACATACAAGGATACTGGAAAGCAATTTAATGTGATAGCAGCTTCTTGGATTCAATTTATGATTCATGATTGGATCGATCATCTTGAGGACACAAACCAGgtccttatattatattatatatatatatatatatatatatatatatatatatatat-atatatatatatatatatatatatattatctttttctcgtatga
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G04410.1 (Glycine max), 5'ss of exon 3
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattctat-tatttttctgtttaatccatcatttacgcacatgcacttat-catatatatgtttttaacgaaaaaattgatttggtaacttag
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GACATACAAGGACACTGGGAAGCAATTTAATGTGATAGCAGCTTCTTGGATTCAATTTATGATTCATGATTGGATCGATCATCTAGAAGATACCAATCAGgtccttatattatacctacgtatatacttatgatctcatatatatatatatatatatatatatatatcctttttctattatacaaatctcacctagtcaa
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0066g01670.t01 (Vitis vinifera), 5'ss of exon 3
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattcta--ttatttttctgtttaatccatcatttacgc--acatgcacttatcatatatatgtttttaacgaaaaaattgatttggtaacttag---
| | || | ||||||||||| || ||||||||||| ||||| |||||||||||||||||||| |||||||||||||||||| | || || || || || || | ||| | | | || | || | | ||||| | || || || | || ||| | | | ||| || | | || ||| |
AGATTTCACTGACACGGGAAAGCAGTTCAACATGATAGCAGCGTCTTGGATTCAGTTCATGATACATGATTGGATTGATCATATGGAGGATACCCAGCAGgtcttgccatttaagatcaacttcttacttgaaatagaatttaatttaatattcaagaatgagat-tataataattatgaatctatggtctgaatatctttgtag
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0066g01690.t01 (Vitis vinifera), 5'ss of exon 4
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattcta--ttatttttctgtttaatccatcatttacgcacatgcacttatcatatatatgtttttaacgaaaaaattgatttggtaacttag
||| || | ||||||||||| || ||||||||||| |||||||||||||||||||||||||| |||||||||| |||||| || || || || || || || | ||| | | | ||| | || | | ||||| | ||| ||||| | | | | | || | | || |||
AAATTTCACTGACACGGGAAAGCAGTTCAACATGATAGCAGCTTCTTGGATTCAGTTCATGATACATGATTGGACTGATCACCTGGAGGATACCCAGCAGgtcttgccatttaagatcaatttcttacttgaaatagaattta---------attta--atatagaagaatgagattataagaattatgaatgcttgtagMapped 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|86085280|gb|DR381039.1|DR381039EST: TTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACSAA ATCGAACTTGTCGCTCCAAAAGAAGTAGCGAGCAAGTGTCCCTTAAGCTCC
genomic: TTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaat ... ggtaacttagATCGAACTTGTCGCTCCAAAAGAAGTAGCGAGCAAGTGTCCCTTAAGCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGTTTATCGACACGGGAAAACAATTCAACATGATTGCAGCTTCTTGGATTCAGTTCATGATCCATGATTGGATTGATCATCTTGAAGACACTCACCAAgttcgtcaattctattatttttctgtttaatccatcatttacgcacatgcacttatcatatatatgtttttaacgaaaaaattgatttggtaacttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA