Sequence
atgc intronic sequence ATGC exonic sequence...gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
Basic information
species | Glycine max |
transcript | GLYMA18G47050.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggg--gggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
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-------------------------gtaatcatcaatagagtagaatatcctttcagtttatgctgtcattctaattgccttt-----gtggtct-ccatagATGTCTTATACTGAGAGGAAATGGGGAGCTTTCACTTCTTGATTTGGTTGATGGACGAGAGAGGGAACTTACAGACTCAGTTGAACTATTTTGGGTGACA
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggg--gggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
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-------------------------gtaatcatcaatagagtagaacatcctttcggtttatgctgtcattctaattgccttttg----tggtct-ccgtagATGTCTTATACTGAGAGGAAATGGGGAGCTTTCACTTCTTGATTTGGTTGATGGACGAGAGAGGGAACTTACAGACTCAGTTGAACTATTTTGGGTGACA
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 9
gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
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---------------------gtatgttcttatccttcaaaatgttaaatagaactttctcacacaacatacttctgactacctgcatgccttgcc--agATGTTTGATATTGAGAGTGAATGGGGAGCTTTCACTACTTGACCTGGATGATGGACGTGAAAGAGAGCTCACGGATTCTGTTGAATTATTTTGGGTTACCMapped 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|14259972|gb|BG882880.1|BG882880EST: ATTTCAAACAATTTGGTTTTGTCAGATTCATTAACAAGAGAGCCAGCGAG ATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGA
genomic: ATTTCAAACAATTTGGTTTTGTCAGATTCATTAACAAGAGAGCCAGCAAGgtattctcct ... tttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
ttatactttcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtaactagaatatgaggatggaagcattcatgcgtggggaggggggggggggggttatactttcatatgactttcctcatgaaagtgatttgttgtagATGTTTGATATTGAGAGCAAATGGGGAGCTTTCACTTCTTGACTTGGATGATGGACGGGAGAGAAATCTCACTGATTCAGTTGAACTATTTTGGGTCACC
- - - - - - - -gaggatg
- - - - - - - - - - - - -gcattca
- - - - - - - - - - - - - - - - -gcgtggg
- - - - - - - - - - - - - - - - - - - - - ggggggg