Sequence
atgc intronic sequence ATGC exonic sequence...cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatgcagatatatcatatatattgttctttttatgattactttttccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
Basic information
species | Glycine max |
transcript | GLYMA08G09360.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G01220.1 (Arabidopsis thaliana), 3'ss of exon 3
--cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatgcagatatatcatatatattgttctttttatgattactttttccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
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tttagtactcactcctacgaatgttgtttcaattcgagaggtaatttgatttggtttgaattcattcttcaactctttttgtattatctctgttc--tacagGTGGATATGTACTTGCTTTCGCAGGCAGCTTTCCCAACAGGAGGATTGTATTTCAAGAACAAAACATGGGTTAAAGAAACAAAGGGAAAACATGCGATAA
upper sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 3
cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatgcagatatatcatatatattgttct--ttttatgattactttttccat-----tgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
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---tatgctgtattgtaaaaaattaactgaaaactgcaaagt----aatattggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
upper sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 3
cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatg-cagatatatcatatatattgttctttttatgattacttt-----ttccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
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--ttatgactggagttactaatatataaaatttcaaa----ttggaattgattggtttcttccaccgatttagcatctaatgataacgttgatcactttgctacagGTGGATCTCTACCTGCTTCCCCAGGTAGCATTTCCTACAGGAGGATTATACTTCAAGAACCAGACATGGGTGCAAGAAACAAAGGGATTGCATGTTATCAMapped 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|58025214|gb|CX711955.1|CX711955EST: AATGAAGAATGCTAAAGAG GTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATAT
genomic: AATGAAGAATGCTAAAGAGgtttgttaaa ... tccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgcagatatatcatatatattgttctttttatgattactttttccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
atctaaa putative branch site (score: 3)
ttactttttccatt putative PPT
atatatcatatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatgcagatatatcatatatattgttctttttatgattactttttccattgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - gaagggg
- - - - - - - tggtggg
- - - - - - - - - - - - - - - - - - - - - - - aatgcag