Sequence
atgc intronic sequence ATGC exonic sequence...gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgtttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
Basic information
species | Glycine max |
transcript | GLYMA17G04460.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G04460.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 3
----gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgtttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
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gcaaacaaaaattcccagaaacagaaaatgcttctctaaaaaaattcacatattttttgtt-catataacttatttcttccattgaactatattt---tcacagGTCAAGGAGCTGAATTCATATGTGGCTTTGAGAAAAAC
upper sequence: GLYMA17G04460.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ18982 (Selaginella moellendorffii), 3'ss of exon 2
gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgtttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
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---------------------------------------------gtaagttccaggccag--gagattttgcgagcgctacgatg-gtgtctcttgcagATCAAGGAGCTCAACTCGTATGTGGCCCTGCGCAAAAC
upper sequence: GLYMA17G04460.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ08727 (Selaginella moellendorffii), 3'ss of exon 3
gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgt--ttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
|| ||| | | | ||||| | | | | | | || | | |||| | | ||||||||||||||||||| ||||| |||||||| || | |||||
---------------------------gtaagttccatgctaggaggccatggaggcttttcgagcgatcgatctcatcgctaggatg-gtgtctcttgcagATCAAGGAGCTCAACTCGTATGTGGCCCTGCGCAAAAC
upper sequence: GLYMA17G04460.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ06459 (Selaginella moellendorffii), 3'ss of exon 3
gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgt--ttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
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---------------------------gtaagttccatgctaggaggccatggagattcttcgagcgatcgatctcatcgctaggatg-gtgtctcttgcagATCAAGGAGCTCAACTCGTATGTGGCCCTGCGCAAAACMapped 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|298197922|gb|HO039461.1|HO039461EST: GAAATCCCCCAGAAGTGAATAAGCAGCTCAATGATGAAAAGCAATCAATG ATCAAGGAGCTAAACTCATATGTGGCATTGAG
genomic: GAAATCCCCCAGAAGTGAATAAGCAGCTCAATGATGAAAAGCAATCAATGgtcagtaccc ... cttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcccatgtaaacacagccaactctttatgtttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
cttacattcttctt CT-rich tract
tttatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgagcctctgaggattgtccacttgtttgttatacattgcatgcccatgtaaacacagccaactctttatgtttgctaacttacattcttcttgcagATCAAGGAGCTAAACTCATATGTGGCATTGAGAAAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - gcctctg
- - - - - - - - - tgtccac
- - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - catgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cacagcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctaac