Sequence
atgc intronic sequence ATGC exonic sequence...ctgccgctgttactgcttggattaaatgcacataatctgtgatatccctgtttttttaaagtgatatctcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
Basic information
species | Glycine max |
transcript | GLYMA09G36360.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G16430.1 (Arabidopsis thaliana), 3'ss of exon 4
ctgccgctgttactgcttggattaaatgcacataatc-tgtgatatccctgtttttttaaagtgatatctcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
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-----gcaaggcatctttaaaaatattaaacctttttgtgcaatattctcaaaccatgagtaagagga---tctgaatattcttatctttc--ttggacagGAAAATACACACCACAGTACCAATGGCTCGAAGAGGAGTTCCCAAAGGTTAACAGAACGGAAACTCCGTGGTTGATTGTTCTGATGCATTCACCATGGTA
upper sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 5
ctgccgctgttactgcttggattaaatgcacataatctgtgatatcc-ctgtttttttaaagtgatatctcttttgt-tataataatcttccat-tttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
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---acactattatatgcaggaaggaacgagttcatttcagcttgtcctccaaatgcttatattggtaattaaaatgaatgtttttatgtcttacgcttttcagGAAAATATACTCCTCAGTTTATGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
upper sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 5
ctgccgctgttactgcttggattaaatgcacataatctgtgatatcc-ctgtttttttaaagtgatatc----tcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
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-----actattatatgcaggaaggaacgagctcatttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTAMapped 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|193467649|gb|FK433546.1|FK433546EST: CAAGAGAGCTTCAGCACACATCATTGTTTTGGCCTCATATTCAGCGTATG GAAAATATACACCACAATATAAATGGCTTGAAAAGGAGCTACCGAAAGTTA
genomic: CAAGAGAGCTTCAGCACACATCATTGTTTTGGCCTCATATTCAGCATATGgtaatgctag ... attttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTA
EST:
gi|20812936|gb|BQ297414.1|BQ297414EST: CAAGAGAGCTTCAGCACACATCATTGTTTTGGCCTCATATTCAGCGTATG GAAAATATACACCACAATATAAATGGCTTGAAAAGGAGCTACCGAAAGTTA
genomic: CAAGAGAGCTTCAGCACACATCATTGTTTTGGCCTCATATTCAGCATATGgtaatgctag ... attttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctgtttttttaaagtgatatctcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
tcttccattttctc CT-rich tract
tttttttaaagtgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgccgctgttactgcttggattaaatgcacataatctgtgatatccctgtttttttaaagtgatatctcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA
- -ccgctgt
- - - - - tactgct
- - - - - - - - - - - - aatgcac
- - - - - - - - - - - - - - - - - atctgtg