Sequence
atgc intronic sequence ATGC exonic sequence...actttgatgatcataattttggtcttcttagtccttacctaactcacatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
Basic information
species | Glycine max |
transcript | GLYMA12G06680.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G06680.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G07540.1 (Arabidopsis thaliana), 3'ss of exon 8
actttgatgatcataattttggtcttcttagtccttacctaactcacatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
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------------gtaaaataaaactctc---tccttac---agtga-atgaggtctatgtttcttgtgcaagaagtaact--aattttgggattgattagGACAAATGGAAGACGCTGGTGCACACAGCAAGAATATCACCGCAACAAAGGAGAGGTGAGCCAGTTCCACAGGAGCTCTTAGACCGGGTACTAACGGCTC
upper sequence: GLYMA12G06680.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G59430.2 (Arabidopsis thaliana), 3'ss of exon 9
actttgatgatcataattttggtcttcttagtccttacctaactcacatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
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-gtttgc--attttaatc--agtagtttaaattctaaattcggtgaaaccaaatcgcatgattaggtctgagaaataact---gtttggtatttgtgcagGATAAATGGAAAACGCTGGTCCACACGGCTAAGATATCTCCACAACAGAGGAGAGGAGAGCCAGTGCCGCAGGAACTTCTAAACCGAGTCTTGAACGCCC
upper sequence: GLYMA12G06680.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g04940.t01 (Vitis vinifera), 3'ss of exon 9
--actttga-tgatcataattttggtcttcttagtccttacctaactcacatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
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ccccaaagagcaatctgggttgttgttttaccatctttttttggatttgtatgattgaaaagtcatgtg---acggcggggtttggtaatgttgggtatgcagGACAAGTGGAAAACTCTGGTGCACACGGCAAGAATATCCCCTCAGCAAAGGAGGGGTGAGCCTGTTCCCCAGGAACTCCTGGATAGGGTCCTAACTGCCCMapped 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|214004175|gb|DB989292.1|DB989292EST: AGGTTTGTGCTTTTGATAATGCAAAGCATCGGACATATGTGGATTTGAAG GATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGG
genomic: AGGTTTGTGCTTTTGATAATGCAAAGCATCGGACATATGTGGATTTGAAGgtaaaaacgt ... ggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
aactcac putative branch site (score: 2)
atgtgatttaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttgatgatcataattttggtcttcttagtccttacctaactcacatggcagacaaatgttttacatgtgatgtgatttaaattttggggttgtgcagGATAAATGGAAAACACTGGTGCACACGGCAAGAATATCCCCTCAACAAAGGAGGGGTGAACCTGTTCCCCAAGAACTTTTGGACAGGGTTCTAGTGGCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - tgatgat
- - - - - - - - - - - - - - - - ccttacc
- - - - - - - - - - - - - - - - - - - - - ctcacat
- - - - - - - - - - - - - - - - - - - - - - - - - gcagaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgtg