Sequence
atgc intronic sequence ATGC exonic sequence...atgtttttttttttttttatcttaagataccacaaaattggacatgggtttggtgattgacaattggcaattttttattttttgctttttgtgtgctcagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGAACAAGGCACCCCAATTCAACTTTGTGTGCAGAAAGAACGTGGTGTTGAG
Basic information
species | Glycine max |
transcript | GLYMA12G17510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G17510.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g57610.1 (Oryza sativa), 3'ss of exon 2
------atgtttttttttttttttatcttaagataccacaaa--attggacatgggtttggtgattgacaattggca-attttttattttttgctttttgtgtgct-cagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGAACAAGGCACCCCAATTCAACTTTGTGTGCAGAAAGAACGTGGTGTTGAG
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gtaaatctgccttacctcttcgacacataacgtggccgcgcgcgatggatgatatatattcttatatgcagtagtaatatatataattaacagttttgcgattgtgacagGGTTGTATCGTTATCGCGTGGGCGACGTGCTGAGGGTGGCGGGGTTCAAGAACAAGGCCCCGATGTTCAGCTTCGTGCGGCGGCAGAACGTGGCGCTGAG
upper sequence: GLYMA12G17510.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 2
atgtttttttttttttttatcttaagataccacaaaattggacatgggtttggtgattgacaattggcaattttttattttttgctttttgtgtgctcagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGAACAAGGCACCCCAATTCAACTTTGTGTGCAGAAAGAACGTGGTGTTGAG
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-------gtcagttgcccgacataattgact-taatttttttcatttgtctttcaaatgtatgctgata----tatatgtcatgaacttgatgc-tgcagGGCTGTATAGGTATAGAGTAGGAGATGTGCTCCGTGTGGCCGGATTCAAGAACAAGGCACCCCAGTTCAACTTCGTATGCCGGAAGAATGTGGTGTTGAGMapped 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|18848536|gb|BM567719.1|BM567719EST: TGATGTCAAACTTGGCCAAGAATATGAACTTGTTGTCACAACTTATGCTG GATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGA
genomic: TGATGTCAAACTTGGCCAAGAATATGAACTTGTTGTCACAACTTATGCTGgtgagaataa ... gtgtgctcagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggtttggtgattgacaattggcaattttttattttttgctttttgtgtgctcagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGAACAAGGCACCCCAATTCAACTTTGTGTGCAGAAAGAACGTGGTGTTGAG
gattgac putative branch site (score: 3)
ttttttattttttgct putative PPT
aattttttattttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtttttttttttttttatcttaagataccacaaaattggacatgggtttggtgattgacaattggcaattttttattttttgctttttgtgtgctcagGATTGTATCGTTACAGAGTTGGTGATGTGCTGAGGGTGGCTGGATTCAAGAACAAGGCACCCCAATTCAACTTTGTGTGCAGAAAGAACGTGGTGTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - -ccacaaa
- - - - - - - - - - - - - - - - - - - - - - -gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - gtgattg