Sequence
atgc intronic sequence ATGC exonic sequenceAGGTTGGGCACTTGCAGCTGGATTGTTATGTGGGTTTGGTAACGGTCTTCAGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaacacttataatcctaaactagaacgtttctttgatctttgcttgcgttttagtgattcttgattggtattcttgtacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26440.4 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26440.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os12g31890.1 (Oryza sativa), 5'ss of exon 6
AGGTTGGGCACTTGCAGCTGGATTGTTATGTGGGTTTGGTAACGGTCTTCAGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaacacttataatcctaaa----ctagaacgtttctttgatctttgcttgcgttttagtgattct-tgattggtattcttg---tacag----------------
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GCACTGGGCGCTCCTGGCAGGGCTGCTCTGTGGGTTTGGCAATGGGTTCCAGTTCATGGGTGGGCAGGCTGCTGGATATGCAGCTGCTGATGCTGTCCAGgtgatcctctc-cttaggttcatatcagctctgcaatgtttgctgcat-tttacctgcatttcagctgtaatacaactaaaactcatggtgttcatgatatggtgtgatcag
upper sequence: AT1G26440.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA01G07120.2 (Glycine max), 5'ss of exon 7
AGGTTGGGCACTTGCAGCTGGATTGTTATGTGGGTTTGGTAACGGTCTTCAGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaacacttataatcctaaactagaacgtttctttgatctttgcttgcgttttagtgattcttga--ttggtattcttgtacag-----------
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AGTCTGGGCCTTGTTGGCTGGTCTACTTTGTGGGTTTGGGAATGGTCTTCAATTTATGGGTGGTCAAGCAGCAGGATATGCAGCAGCAGATGCAGTCCAGgttagttttattacttcgattataaaaaacga-atttgattggaatacactaatattgtaaaggttatttacgttgtcatttaatcatagattgttacgtt
upper sequence: AT1G26440.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G12970.2 (Glycine max), 5'ss of exon 7
AGGTTGGGCACTTGCAGCTGGATTGTTATGTGGGTTTGGTAACGGTCTTCAGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaacacttataatcctaaactagaacgtttctttgatctttgcttgcgttttagtgattcttgattggtattcttgtacag---------------
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AGTCTGGGCCATGTTGGCTGGTTTGCTTTGTGGGTTTGGGAATGGTCTCCAATTTATGGGTGGTCAAGCTGCAGGATATGCAGCAGCAGATGCAGTCCAGgttagttttattacttcgattagaaa--aagaatttaatttgaa-tgcactaacattgtaatggttgtttacatcggctatttaatgggtaaaatatgtttatMapped 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|86078890|gb|DR374647.1|DR374647EST: AGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAG GCACTTCCTTTAGTATCGACTTTTTGGGGGATATATCTGTTTGGGGAGTAT
genomic: AGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaa ... tcttgtacagGCACTTCCTTTAGTATCGACTTTTTGGGGGATATATCTGTTTGGGGAGTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTTGGGCACTTGCAGCTGGATTGTTATGTGGGTTTGGTAACGGTCTTCAGTTCATGGGTGGACAAGCTGCAGGATATGCAGCCTCAGATGCTGTTCAGgtcacacaaacacttataatcctaaactagaacgtttctttgatctttgcttgcgttttagtgattcttgattggtattcttgtacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT