Sequence
atgc intronic sequence ATGC exonic sequenceAGTGCAAACCTTAATAGAGAAAACCTTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgtaataccaaaatactatttcttctgttgtagcttgaagttcctggttaaaagcagactcgtgactggtaggaactcaatgtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16950.1 |
intron # | 23 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GRMZM5G869572_T01 (Zea mays), 5'ss of exon 3
AGTGCAAACCTTAATAGAGAAAACCTTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgt-aataccaaa-----------atactatttcttctgttgtagcttgaagttcctggttaaaagcagactcgtgactggtaggaactcaatgtttcag-
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AACCCTCAATCTGTGAAGGATGCGGTATCAGTAGCTAACAATGCTTGTTGGGCTATTGGAGAATTAGCAATCAAGgttagtgcctacctttatgttgtataccattagatttaactcagtgctgaattctttatccataaaatatctgtcgtggtttcggaaaccgggggacaat
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA10G42960.1 (Glycine max), 5'ss of exon 23
AGTGCAAACCTTAA--TAGAGAAAACC-TTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgta---ataccaaaatactatttcttctgttgtagcttgaagttcctgg---ttaaaagcagactcgtgactggtaggaact-caatgtttcag-------
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---GAGATTTCTAAGGTAAAGGAGGCTATTTCAGTAGCAAATAATGCATGCTGGGCAATTGGAGAATTAGCAGTTAAGgtatgcaatttttaatgctgctttctgataaaatgatagaaatgtatggaaactagaaactaattgac-attgatggatattgtcataattaagaattagg
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA20G24040.1 (Glycine max), 5'ss of exon 23
AGTGCAAACCTTAA--TAGAGAAAACC-TTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgta-ataccaaaatactatttcttctgttgtagc--ttgaagttcctgg---ttaaaagcagactcgtgactggtaggaact-caatgtttcag-------
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---GAGATTTCTAAGGTAAAGGAGGCTATTTCAGTAGCAAATAATGCATGCTGGGCAATTGGAGAATTAGCAGTTAAGgtatgcaatttttaatgatgctttctgataaaatgatagaaatgtatggaagctagaagctaatatgc-attgatggatactgtcataattaataattagg
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 5'ss of exon 23
AGTGCAAACCTTAA-TAGAGAAAACC-TTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgtaataccaaaatactatttcttctgttgta-------gcttgaagt----tcctggttaa--aagcagactcgtga-ctggtaggaactcaatgtttcag
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--AACACTTCTAAGCTGAAGGAAACTGTTTCAGTGGCGAATAATGCCTGTTGGGCAATTGGAGAATTAGCAGTTAAGgta-tgttctccaattttttcttcagcaaaatcattccacatgatgtgcctttctgatttattgatctgtcttaaaagttgactggattttaacataagatMapped 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|124831351|gb|EH915790.1|EH915790EST: TTCTGTCGCAAATAATGCTTGTTTGGGCCATTGGAGAATTAGCGGTCAAG GTTCGTCAAGAAGTCTCACCAATTGTGGCCAAAGTTGTCTCTTCCCTAGG
genomic: TTCTGTCGCAAATAATGCTTG-TTGGGCCATTGGAGAATTAGCGGTCAAGgtaataccaa ... aatgtttcagGTTCGTCAAGAAGTCTCACCAATTGTGGCCAAAGTTGTCTCTTCCCTAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTGCAAACCTTAATAGAGAAAACCTTTCTGTCGCAAATAATGCTTGTTGGGCCATTGGAGAATTAGCGGTCAAGgtaataccaaaatactatttcttctgttgtagcttgaagttcctggttaaaagcagactcgtgactggtaggaactcaatgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA