Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G58970.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G58970.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA05G30180.1 (Glycine max), 3'ss of exon 1
-gtaaaaacttcgatttgctaattcctggattaggtcataag-atcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
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ggttctgagttttcttttctt-ttcttggacggtgttatgactatgatgaagaatgaagaatagaat---tataatgtgtctttttttataaaaaaaatt---------gcagCTAGAGAGAAAGCAATGGTGGTTAATTTGGAGTTTATAAAGGCAATCGTGACTGCTGAAGAAGTGTTATTGCTTGATCCTCTTCGGCAGGAGGTTCTTCC
upper sequence: AT3G58970.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G13340.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------gtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctga----agttataagcttgtttttt-------tgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
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gtattccaatcccccccccccccccccctccgttttatcctttttcaatttcatcgtgttctcaaaattagggtttctctaaa--tgaattgaatcacgtgttt-taaatgttcaccatcagtattatgattatggtgaagaatagaattatatgtgtctttttaattattattttttgcagCTAGAGAGAAAGCAATGGTGGTTAATTTGGAGTTTATAAAGGCAATTGTGACTGCTGAAGAAGTGTTATTGCTTGATCCTCTTCGGCAGGAGGTTCTTCC
upper sequence: AT3G58970.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G13340.2 (Glycine max), 3'ss of exon 1
gtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtg-tttctgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATT-GTTGTG-AATTTAGAGGTCA---TAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
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------------attttttgcagctagagagaaagcaatggtggttaatt--tggagtttataaaggcaattgtgactgctgaagaagtgttattgcttgatc-ctcttcggcagGAGGTTCTTCCCTTTGTTGAGCAACTCAGGCAACAGCTTCCTGGCAAAAGTCAACCTAAACTTCTCGGCGGCAC-GGAAGAGCAGGAAGGCGAAATGCATG-
upper sequence: AT3G58970.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv12s0034g02550.t01 (Vitis vinifera), 3'ss of exon 1
gtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttc-----tgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
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---------------tgctagtgttcctactgttaaataatcacacacgtgttgtgcatatactggttcattattgtcaaccagtaaagtca-aattttattcctttcctttgcagCTAGGGAAAAGGCCATGGTTGTCAATCTAGAGTTCATAAAGGCTATAGTTACAGCTGAAGAAGTGTTGTTGCTAGATCCTCTTCGACAGGAGGTTCTTCCMapped 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|47830731|gb|CK120415.1|CK120415EST: GGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCG CCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTA
genomic: GGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCGgtaaaaactt ... tgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
cttgtttttttgctct CT-rich tract
ttgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTACTGCAGAAGAAGTGTTGTTGTTGGATCCTCTCCGTCCTGAAGTTCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
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