Sequence
atgc intronic sequence ATGC exonic sequencegtaactcaactcctctgctcatattaatttatattctatatttccatagctagtatttggtgggtcatcaatatcgttgctaattcttgtttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAGATTAGCTTGCAACAAGGACGAATTGTGGCCCTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA06G00230.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0921g00020.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------------------------------------gtaactcaactcc---tctgc------tcatattaatttatattctatatttccatagctagtatttggtggg--tcatcaatatcgttg--ctaattcttg----tttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAGATTAGCTTGCAACAAGGACGAATTGTGGCCCTGGAAG-----
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gtacgttgcatacgtttatttttgtttatttgtttattttttatgtgcatgaagtgtagcttgtttgagtagaggagatccactgcagatttgtgtggtatcttattgatcagcttccttcattgcaattatcaaaaaacaaggaaactcatttttaagaattacctatttattggatctttaacagGTGGAGGCAGAAAACCTTTGTACCAGTCAAATGCGATCTCTGATTGATCAAATAAGTATGCAACAAGGACGAATTGTGGCCCTTGAAGGTTAG
upper sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------------------------------------gtaactcaactcc---tctgc------tcatattaatttatattctatatttccatagctagtatttggtggg--tcatcaatatcgttg--ctaattcttg----tttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAGATTAGCTTGCAACAAGGACGAATTGTGGCCCTGGAAG
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gtacgttgcatacgtttatttgtttattttttatgtgcatgaagcgtagcttgtttgagtagaggagatccactgcagatttgtgtggtatcttattgatcagcttccttcattgcaattatcaaaaaacaaggaaactcatttttaagaattacctatttattggatctttaacagGTGGAGGCAGAAAACCAGTGTACCAGTCAAATGCGATCTCTGATTGATCAAATAAGTATGCAACAAGGACGAATTGTGGCCCTTGAAGMapped 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|209705954|gb|BW661771.1|BW661771EST: TGAGGCTTTTCGCAACACAATCAGAATATGCTGATCGCCTCGCTGCAGCT ATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAG
genomic: TGAGGCTTTTCGCAACACAATCAGAATATGCTGATCGCCTCGCTGCAGCTgtaactcaac ... tgtttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatagctagtatttggtgggtcatcaatatcgttgctaattcttgtttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAGATTAGCTTGCAACAAGGACGAATTGTGGCCCTGGAAG
tgctaat putative branch site (score: 2)
ttcttgtttc CT-rich tract
tagtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactcaactcctctgctcatattaatttatattctatatttccatagctagtatttggtgggtcatcaatatcgttgctaattcttgtttcacagATCGAAGCTGAAAACCATTGTACAAGTCAAACGCGATCGCTGATTGATCAGATTAGCTTGCAACAAGGACGAATTGTGGCCCTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG