Sequence
atgc intronic sequence ATGC exonic sequence...cctagactcactttaaagtttgttttattttataatatgtctgttctattggccttatttatttatttagtatgtatataatcttctgggacatatgtagGTTGGTTCTCTATCCTTCCTTTGCATCTCTTCTTGGGATAGAGAAACTTCGTCAATGTTGTGCTACATGGTTGATTCTTGAACAACATCTTCTACGCCAT
Basic information
species | Glycine max |
transcript | GLYMA20G28920.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28920.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g00560.t01 (Vitis vinifera), 3'ss of exon 9
-------------------cctag-actcactttaaagtttgttttattttataatatgtctgttctattggccttatttatttatttagtatgtatataatcttctgggacatatgtagGTTGGTTCTCTATCCTTCCTTTGCATCTCTTCTTGGGATAGAGAAACTTCGTCAATGTTGTGCTACATGGTTGATTCTTGAACAACATCTTCTACGCCAT
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gtgggtgctaggcattttctttatcatctgcttaagaattctgtttagcatgggattaatgcttttcatgcatccttgttgtc--ttcatcatgtattgatgatggtaaggcatttgcagGTTGCTTTTATATCCTTCTTTTGCATCTCTTCTTGGAATAGAGAAACTTCGCCAGTGTTGTGCTACATGGTTGCTTCTTGAACAATACCTTCTACGCTGT
upper sequence: GLYMA20G28920.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g00030.t01 (Vitis vinifera), 3'ss of exon 9
-------------------cctag-actcactttaaagtttgttttattttataatatgtctgttctattggccttatttatttatttagtatgtatataatcttctgggacatatgtagGTTGGTTCTCTATCCTTCCTTTGCATCTCTTCTTGGGATAGAGAAACTTCGTCAATGTTGTGCTACATGGTTGATTCTTGAACAACATCTTCTACGCCAT
|| | ||| | | || |||| | || | || || | | || | || | |||||| | | | | ||| || |||||| || | |||||||| ||||||||||||||||| |||||||||||||| || |||||||||||||||||| ||||||||||| | ||||||||| |
gtgggtgctaggcattttctttatcatctgcttaagaattctgtttagcatgggattaatgcttttcatgcatccttgttgtc--ttcatcatgtattgaggttggtaaggcatttgcagGTTGCTTTTATATCCTTCTTTTGCATCTCTTCTTGGAATAGAGAAACTTCGCCAGTGTTGTGCTACATGGTTGCTTCTTGAACAATACCTTCTACGCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattggccttatttatttatttagtatgtatataatcttctgggacatatgtagGTTGGTTCTCTATCCTTCCTTTGCATCTCTTCTTGGGATAGAGAAACTTCGTCAATGTTGTGCTACATGGTTGATTCTTGAACAACATCTTCTACGCCAT
ttatttatttatttag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctagactcactttaaagtttgttttattttataatatgtctgttctattggccttatttatttatttagtatgtatataatcttctgggacatatgtagGTTGGTTCTCTATCCTTCCTTTGCATCTCTTCTTGGGATAGAGAAACTTCGTCAATGTTGTGCTACATGGTTGATTCTTGAACAACATCTTCTACGCCAT
- - - - - - - - - - - - - - - - - - - gtctgtt
- - - - - - - - - - - - - - - - - - - - - - -ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttctg