Sequence
atgc intronic sequence ATGC exonic sequence...taattctcattgcattgtttatattgcatatgaaaaaggtctaacaaatgcttctgactagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
Basic information
species | Glycine max |
transcript | GLYMA07G39240.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39240.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G11910.1 (Arabidopsis thaliana), 3'ss of exon 8
taattctcattgcattgtttatattgcatatgaaaaaggtcta-acaaatgcttctgactagtttgtttctatgatcgcatattgggttttgttct-tgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
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------gtaagcaagaattaaaattgcttat-----agctttatagaattatggttttttaactagtatatgtagtaatatttcaattttttccctgtgtagACTATAATCACCATGATAAACCATGCTATTGGAGCAGCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTGGATCAATACGGGCAGACCATTTTGGATT
upper sequence: GLYMA07G39240.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G62290.2 (Arabidopsis thaliana), 3'ss of exon 7
-taattctcattgcatt-gtttata-ttgcatatgaaaaaggtctaacaaatgcttctgactagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
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gtaag-caaataccacgagtttatagttttatttcagttagtttgagtatatgttt---gctcttgaagttct-----cattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
upper sequence: GLYMA07G39240.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0116g01210.t01 (Vitis vinifera), 3'ss of exon 8
taattctcattgcattgttt--atattgcatatgaaaaaggtctaacaaatgcttctg-actagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
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caaataaaacggctgtgatatgaaagcccatacttttagcgctatagcaatgcatctctaaaaatatggttgtttaattg---attcagtctgtctttctcagGCTGTTGTTGCTATGATAAATCATGCCATTGGAGCCACCGGAGTTGTTAGCCAGGAATGCAAGACTGTAGTTGCACAGTATGGGGAAACAATCATGGATTMapped 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|58015932|gb|CX702674.1|CX702674EST: GTTGGCA-GTCCCAACG ACTGTAATANCTATGATAAACCATGCAATTGTAGCATCTGGAGTTATGAG
genomic: GTTGGCAGGT-CCAACGgtatgaataa ... gttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgcttctgactagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
ttctgac putative branch site (score: 2)
ttttgttctt putative PPT
tttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattctcattgcattgtttatattgcatatgaaaaaggtctaacaaatgcttctgactagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - -cattgca
- - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - -gaaaaag
- - - - - - - - - - - - - - - - - - - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtttt