Sequence
atgc intronic sequence ATGC exonic sequence...tccaatgagaattaatttggcttagttggctttatcttgtttgatttttttattattattattattatatgttggataatggtgatattatgcattccagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCTCCTGTGGGTGATCTTGGGATGGTTGCGATGTCACAGGCTTTAAATCTAA
Basic information
species | Glycine max |
transcript | GLYMA09G38520.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G38520.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G47390.2 (Arabidopsis thaliana), 3'ss of exon 8
--tccaatgagaattaatttg-gcttagttggctttatcttgtttgatttttttattat-tattattattatatgttggataatggtgatattatgcattc--cagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCTCCTGTGGGTGATCTTGGGATGGTTGCGATGTCACAGGCTTTAAATCTAA
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gtacccattatactatatccatacttatttgtagtcatcttatgtttttgtctggctaaacctcattttcttacacttctttctctcaatgtaattcatttttcagGTTGTTGCTTTCGTTGCTCCAAAAATTATCGGTGGGAGTAAAGCACCTTCCCCTGTGGGTGACCTTGGGATGGTAGAGATGACACAAGCATTGAATTTAA
upper sequence: GLYMA09G38520.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g00680.t01 (Vitis vinifera), 3'ss of exon 5
--tccaatgagaattaatttggcttagttggctttatcttgtttgatttttttattattatta-ttattatatgttggataatggtgatattatgcattccagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCTCCTGTGGGTGATCTTGGGATGGTTGCGATGTCACAGGCTTTAAATCTAA
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gtttaggtgataaatg--ttactgtaaatattttcctcattttgggctcccttgtggttttggctttttttatggttgttca-actgattcttgttaatgtagGTATTTGCATTTGTTGCCCCTAAAATTATAGGTGGAAAGAATGCACCAACTCCTGTTGGTGAACTGGGAATGGTTGAGATGACGCAAGCACTAGATTTAAMapped 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|17519626|gb|BM188668.1|BM188668EST: GCGGAGGAACATTGGCTGCATCTGCTATTTCATCTGGAGTAATTCACAAG GTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCT
genomic: GCGGAGGAACATTGGCTGCATCTGCTATTTCATCTGGAGTAATTCACAAGgtgtggttca ... tgcattccagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttattattattattattatatgttggataatggtgatattatgcattccagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCTCCTGTGGGTGATCTTGGGATGGTTGCGATGTCACAGGCTTTAAATCTAA
tattattattattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccaatgagaattaatttggcttagttggctttatcttgtttgatttttttattattattattattatatgttggataatggtgatattatgcattccagGTTTATGCTTTTGTTGCTCCTAAAATTATTGGTGGAAAGAATGCACCATCTCCTGTGGGTGATCTTGGGATGGTTGCGATGTCACAGGCTTTAAATCTAA
-ccaatga
- - - - - - - - - - - - - - - - - - ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatggtg