Sequence
atgc intronic sequence ATGC exonic sequence...tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgcttttagccagctgttcggtttatttccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
Basic information
species | Glycine max |
transcript | GLYMA03G40440.3 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os12g06810.4 (Oryza sativa), 3'ss of exon 17
tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgctttta-gccagctgttcggtttatttc-cagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC-------------------------------
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----------------------ggagatcattatgcttt-----------tcttgcattaggttcttatacctctgtgataaatattactaatatgaagcaggttttggcacccgaaatgagcttggccacagTGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAGTGGTCCAGTCAAGATGATTGCAACTTGAAACGAATGTTCACCCTAGGAG
upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os12g06810.3 (Oryza sativa), 3'ss of exon 7
---------tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgctttta-gccagctgttcggtttatttc-cagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
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gtcaaatgctgaatcctgtttatttcaatttggagatcattatgcttt-----------tcttgcattaggttcttatacctctgtgataaatattactaatatgaagcagGTTTTGGCACCCGAAATGAGCTTGGCCACAGTGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAGTGGTCCAGTCAAGATGAT
upper sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 17
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgcttt-tagccagctgttcggtttatt----tccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
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-gaaattttcagcattt---tcccatttcctttccccttctctggggat-tcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG----------------------------------Mapped 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|192313088|gb|FK003698.1|FK003698EST: TGAAATATTGTGCAACAACCAG GTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAG
genomic: TGAAATATTGTGCAACAACCAGgcaagcaata ... ttatttccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactatttttcattaaagtaatgtgcttttagccagctgttcggtttatttccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
tttatttcc CT-rich tract
tttttcattaaagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgcttttagccagctgttcggtttatttccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG