Sequence
atgc intronic sequence ATGC exonic sequenceCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G01650.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G01100.2 (Glycine max), 5'ss of exon 5
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
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GTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTGGTCTGCCTGGAGTGCTAGAGAAGCAGCAATTGAGCAAGAGAAGCTTTTAAAGgttac--ctagttccttttttgtgccaactttactatctctaaataga----gtgaaaa-----taataagaatagaaaaatg-----agtaggagctaaacagaaccaaaccaaa-
upper sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G07610.1 (Glycine max), 5'ss of exon 5
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
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GTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTGGTCTGCCTGGAGTGCTAGAGAAGCAGCAATTGAACAAGAGAAGCTTTTAAAGgttac--ctagttcctttttttcc-caactttactctct-----ctcaatatagt-gaaaataataata-taaaaatgaggagccaaaccaaaaatgctgaaaagacaaa-------
upper sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G46760.1 (Glycine max), 5'ss of exon 5
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
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GTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGACTGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttct-----tttcatgccaattt-tattcat----ttttccatatacaagacacttattattggtgaatggagga----atacaaaagttaacaaagacacatgg---
upper sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G39500.1 (Glycine max), 5'ss of exon 5
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
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GTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTGGTCTGCCTGGTCAGCAAGAGAGTCTGCCATTGAGCAGGAGAAGCTATTAAAGgttactggtttcttttcatccc----aattttacgaatttttccttatacaagacaaatattattggtgatcgatggaataca---taagttaacaaagacccatgg----------
upper sequence: AT1G01650.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 5'ss of exon 5
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctgga------------catccaccatgttcgaaccttttgacagccaaggaaaagtgccctcatt---cgtttg--ttatctatcttaaactgcag
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GTTTTTGTGGCTCATGGCCGTTGGTACCATTTTATCTGCATCTTACTGGTCTGCATGGAGTGCCAGAGAAGCAGCTAATGAGCAGGACAAGCTATTAAAGgtaaacttctccttagttactgttatttccatctcttttgaggagggaactccttactcatgggttaagaatcctttctgaatgatccatttgttcttccattgaatgtatggactgttttttttatcttgtagMapped 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|116450140|gb|EG492732.1|EG492732EST: CTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAG GACGGATCAGATGAACTTTTGCAGTTATCAACCACCAGCTCTAGAGGTGTT
genomic: CTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctg ... taaactgcagGACGGATCAGATGAACTTTTGCAGTTATCAACCACCAGCTCTAGAGGTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTGGTCTGCGTGGACCGTCAGGGAAGAAGCTATTGAGCAAGACAAGCTGCTAAAGgtgattgctggctcaaaatttcgtacaattttatattctggacatccaccatgttcgaaccttttgacagccaaggaaaagtgccctcattcgtttgttatctatcttaaactgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT