Sequence
atgc intronic sequence ATGC exonic sequencegtgtgttatttctctagctttgttgatatgatcagtgtcttgacatattttgaagtttttttctatgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G23300.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 2
-----------------------------------------gtgtgttatttctctagctttg-----ttgatatgatcagtgtcttga-catattttgaagtttttttctatgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
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gtgtctctcttttctctaggcattgcttctcttagatggaactatgaaagttaaataaatttggaagttttctgtgcttacagctttgagtgtcttatgctgttcttgatgata-aattgattatagATTCCAATCAAGTGGCCCAAAAGCAGAGATCAGGTATGGAGGGCAAATATACCTCATACCCATCTTGCAACTGAGAAATCTGACCAGAGATGGATGGTTG
upper sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G00550.1 (Glycine max), 3'ss of exon 2
---------------------------gtgtgttatttc--tctagctttgttgatatgatca-gtgtcttgacatattttgaagtttttttctatgtgaatgtgtct-agATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
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gtaaagaatatgccgagactcgatgtgatcttcaacttcaacatatcctcattaatacatttgtataattttgtcaatgctaaaacaattgttgtttctatggtgtttcagATCCCTATTAAGTGGCCACAGAGCAGAGATGAGGTGTGGAAAGTAAATATTCCACACACTCACCTTGCACACGAGAAGTCTGACCAGAACTGGATGATTG
upper sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0049g01180.t01 (Vitis vinifera), 3'ss of exon 3
gtgtgttatttctctagctttgttgatatgatcagtgtcttgacatattttgaagtttttttctatgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
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gtgagaatgtgcgtaagcttaatag---taacaagggtgttgaagttttcttatttttgtgtgtgtctcttcccttgcagATCCCAATCAAGTGGCCAAAAAGCAGAGATGAAGTATGGAAAGCAAACATACCTCATACTCACCTTGCACATGAGAAATCTGACCAGAATTGGATGGTTG
upper sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
---------------------gtgtgttatttct-ctagctttgttgatatgat---cagtgtcttgacatattttgaa--gtttttttcta-tgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
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gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTGMapped 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|125071109|gb|EL136278.1|EL136278EST: CCTCCTCCAGGGTATAAG ATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATT
genomic: CCTCCTCCAGGGTATAAGgtgtgttatt ... atgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgatcagtgtcttgacatattttgaagtttttttctatgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
tcttgac putative branch site (score: 3)
atattttgaagttttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgttatttctctagctttgttgatatgatcagtgtcttgacatattttgaagtttttttctatgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT