Sequence
atgc intronic sequence ATGC exonic sequenceATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtgaagttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttgcatgatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14210.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 12
ATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtgaagttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttgcatgatcag--------------------------------------------------
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AAGCCACGATGACTGAGCTTGCCAAACTCTTTCCTGATGAAATTTCTGCAGACCAAAGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAGgtttgattgaatac-ccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgt--ctttgttgttacttaactaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcag
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA11G36810.1 (Glycine max), 5'ss of exon 12
ATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgtt--agtgaa--gttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttg--catgatcag----------------------
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AAGCCACGATGGCTGAGCTTGCCAAACTCTTCCCTAATGAAATATCTGCAGACCAAAGCAAAGCAAAGATTCTCAAGTACCATGTTGTTAAAACACCAAGgtttgattgaataaccagtctggcaatgtctttgttgttactgaactgatggtgacatttatagcccttacattcagctgtgttctgaatcctaatggaactactggctacattgtttcag
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 5'ss of exon 13
ATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtg-aagttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttgcatgatcag----------
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AAGCTACAATGAAGGAACTTGCCAAACTCTTTCCTGATGAAATTTCAGAAGATCAGAGCAAAGCGAAAGTTTTGAAATACCATGTTGTTAAAACACCAAGgttagaatgaaaaaagtcatttatttatcatctttcct----tttcttttttaattaaaaaatgccaatccattgaatagtaaaaaaaaatgtacaaagaagga
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: PP1S369_27V6.1 (Physcomitrella patens), 5'ss of exon 9
ATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtgaagttgtaccatttatt-tagcttcaaatgagggaccaggctttacat-tgataaattcaacatctttctctattgttgcatg-atcag---------------------------------------------------
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ATGCAACAATGGAAGAGCTAGCCAAATTGTTCCCCAATGAAATTGCAGCTGACCAAAGTAAAGCCAAGATTCTCAAGTACCACGTGGTGAAAACTCCAAGgtactaagaactttacaccctactgtgggctcatct---gcactatgctaaatttcttttaattttgccgtgtgtttgatttttcgcaagcaccagtagttttatgaattcacgagtaagcccttttctgaccgctgcatctttcagMapped 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|116473797|gb|EG516389.1|EG516389EST: GACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAG ATCTGTGTACAAGACCATCCCAAACTGTGAACCATGTCGTCCTCTACAAAG
genomic: GACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtgaag ... gcatgatcagATCTGTGTACAAGACCATCCCAAACTGTGAACCATGTCGTCCTCTACAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCAACAATGAAAGAACTTGAGAAACTCTTCCCTGATGAAATCTCAGCTGACCAAAGCAAAGCTAAAATTCTGAAGTACCATGTCGTTAAGACTCCAAGgttagtgaagttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttgcatgatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG