Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGGGGATGTTCCGGTACAAGAGATTAGAGATTGTGGGGTTGATGATGATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaagctatttgacagctctagtgttacgccacttcatgtatttagtcttttgtgatacttactagatcatttttatgtacctaggggctaaaagttttctgttttgacttttgacatactggtttaaggtcaatgaatctaaaagttcaagtaactgaacatttgtttgttgtgtcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G08900.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G08900.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G33750.1 (Glycine max), 5'ss of exon 5
TGTTGGGGATGTTCCGGTACAAGAGATTAGAGATTGTGGGGTTGATGATGATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaag---ctatttgacagctctagtgttacgccacttcatgtatttagtcttttgtgatacttactagatcatttttatgtacctaggggctaaaagttttctgttttgacttttgacatactggtttaaggtcaatgaatctaaaagttcaagtaactgaacatttgtttgttgtgtcag
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TGTTGGTGATGTTCCTATCCAAGAAATTCGAGATTGTGGGGTAGATGATCATAGATTAATGAATGTAATTGGTGAATCTGTAAAGTTAGTGATGGAGGAGgtaaattctcaatttgtgagccc--gtgcttgg--aatgc---tgtcaaattatttgggat---tattaaattacagttccacaac-atgcaatatatgtcatttcttctt------------------------------------------------------------------------
upper sequence: AT4G08900.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G14040.1 (Glycine max), 5'ss of exon 4
TGTTGGGGATGTTCCGGTACAAGAGATTAGAGATTGTGGGGTTGATGATGATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaagctatttgacagctctagtgttacgccacttcatg-tatttagtcttttgtgatacttactagatcatt-tttatgtacctaggggctaaaagttttctgttttgacttttgacatactggtttaaggtcaatgaatctaaaagttcaagtaactgaacatttgtttgttgtgtcag
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TGTTGGTGATGTTCCTATCCAGGAAATTCGAGATTGTGGGGTAGATGATCACAGATTAATGAATGTAATTGGTGAATCTGTAAAGTTAGTGATGGAGGAGgtaaa-----ttctcaatttgtgagcctgtgctttgaatgctatcaaattgtttgggat---tattaaattacagtttctacaac-atgcaatatatgtcatttcttct-------------------------------------------------------------------------
upper sequence: AT4G08900.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv15s0048g00420.t01 (Vitis vinifera), 5'ss of exon 5
TGTTGGGGATGTTCCGGTACAAGAGATTAGAGATTGTGGGGTTGATGATGATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaagc------tatttgacagctctagtgttacgccacttcatgtatttagtcttttgtgatacttactagatcatttttatgtacctaggggctaaaagttttctgttttgacttttgacatactggtttaaggtcaatgaatctaaaagttcaagtaactgaacatttgtttgttgtgtcag
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TGTTGGTGATGTCCCTGTCCAAGAGATAAGAGATTGTGGTGTAGATGATGACAGGTTGATGAAAATTATAAGTGAGTCTGTCAAGCTAGTGATGGAAGAAgtaagccatatcttgctatatgtttctactatga-gtaattttatggttttttttttctatcacaaattctgcagaacatcagtctctttaa---caaggaatt----------------------------------------------------------------------------------Mapped 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|47829821|gb|CK119505.1|CK119505EST: ATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAG GAACCATTGCGTCCGTTGGTCTTAGGTGGAGACCATTCCATATCTTATCCT
genomic: ATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaagctat ... gttgtgtcagGAACCATTGCGTCCGTTGGTCTTAGGTGGAGACCATTCCATATCTTATCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGGGGATGTTCCGGTACAAGAGATTAGAGATTGTGGGGTTGATGATGATAGACTGATGAATGTCATAAGTGAATCTGTGAAGTTGGTGATGGAAGAGgtaaagctatttgacagctctagtgttacgccacttcatgtatttagtcttttgtgatacttactagatcatttttatgtacctaggggctaaaagttttctgttttgacttttgacatactggtttaaggtcaatgaatctaaaagttcaagtaactgaacatttgtttgttgtgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA