Sequence
atgc intronic sequence ATGC exonic sequence...gccataacttaatttaaatgaatccgaagtgacctgtcttaagttgttgtttggttcgccttgaagaaatgaatgtaatttatttttaatattgtgacagAATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGACGTGCACTCCAATCAGCTTAGGTCCCTCCCAAATTCCATTGGCTGCCTCT
Basic information
species | Glycine max |
transcript | GLYMA17G06490.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06490.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0052g00390.t01 (Vitis vinifera), 3'ss of exon 1
-gccataacttaat-ttaaatgaatccgaagtgacctgtcttaagttg--ttgtttggttcgccttgaagaaatgaatgtaatttatttttaatattgtgacagAATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGACGTGCACTCCAATCAGCTTAGGTCCCTCCCAAATTCCATTGGCTGCCTCT
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agtcttcacatgtcacttaatatttatatagctatgcatttatattcaaatccttttatatgtgttattgtactaatcaaagttgattc---aaattg-gacagAATATACCAGAATCCTTAACAGCAAGACTACTAAATGTGGTGATATTGGATGTGCACTCAAATCAGCTTAAATCCCTCCCAAACTCAATTGGGTGTCTTTMapped 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|21602647|gb|BQ612978.1|BQ612978EST: TCTCTAATAACAATCTTCTG AATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGAC
genomic: TCTCTAATAACAATCTTCTGgttcgtacct ... attgtgacagAATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtttggttcgccttgaagaaatgaatgtaatttatttttaatattgtgacagAATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGACGTGCACTCCAATCAGCTTAGGTCCCTCCCAAATTCCATTGGCTGCCTCT
ttttaat putative branch site (score: 3)
ttgaagaaatgaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccataacttaatttaaatgaatccgaagtgacctgtcttaagttgttgtttggttcgccttgaagaaatgaatgtaatttatttttaatattgtgacagAATATACCGGAGTCCTTAACGGCGAGACTGCTGAACATGGTGGTGTTGGACGTGCACTCCAATCAGCTTAGGTCCCTCCCAAATTCCATTGGCTGCCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - -tgacctg
- - - - - - - - - - - - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgta