Sequence
atgc intronic sequence ATGC exonic sequence...tgattattatttttaaatgatgagactatgatgtcaacacatttctgagtaatattattgtacttattttgatactgttgctatcatatcctgtttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGGGCACATTTGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTT
Basic information
species | Glycine max |
transcript | GLYMA03G07390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G17620.1 (Arabidopsis thaliana), 3'ss of exon 6
tgattattattt--ttaaatgatgagactatgatgtcaacacatttctgagtaatattattgtacttattttgatactgttgctatcatatcctgtttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGGGCACATTTGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTT
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-tcctactacttaatgacttgttgatagaaggaaacagtcatatacataattcctactact-tattgacgttgatagaaatatgtctgttttctcctttcagCATGCTTACAACCCAGATGAAGAATATACTGAAGTGGAATCTCAACTAAGGGCTCGTTTAGAATCGTTTCTTGAAACAGCTAGGGCATTCAATACAATCT
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0024g01470.t01 (Vitis vinifera), 3'ss of exon 6
tgattattatttttaaatgatgagactatgatgtcaacacatttctgagtaatattattgtactt---attttgatactgtt-gctatcatatcctgt---ttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGGGCACATTTGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTT
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------tagtcctttactgctgt-attacgtctttcataaattttattttcttgtttttacgttttttgtttaaatatcattcattattgtggcttctgcattttagCATGCATACAACCCAGATGAGGAGTATGAAGAAGTGGAATCCCAGTTGCGGGCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATGTGATTTMapped 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|151395430|gb|EV265307.1|EV265307EST: CAAAAATATTGTTGAATCTTCAACAAAAAGTTGATGACTTGGCATCCAAG CATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGG
genomic: CAAAAATATTGTTGAATCTTCAACAAAAAGTTGATGACTTGGCATCCAAGgtttactgca ... ctgtttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtaatattattgtacttattttgatactgttgctatcatatcctgtttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGGGCACATTTGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTT
ttttgat putative branch site (score: 4)
tcctgttt putative PPT
aatattattgtactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattattatttttaaatgatgagactatgatgtcaacacatttctgagtaatattattgtacttattttgatactgttgctatcatatcctgtttgtagCATGCTTACAATCCTGATGAGGAGTATACTGAGGTGGAATCCCAATTGCGGGCACATTTGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTT
- - - - - - - - -tgatgag
- - - - - - - - - - - - - - tgatgtc
- - - - - - - - - - - - - - - - - -aacacat
- - - - - - - - - - - - - - - - - - - - - ttctgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgttgc