Sequence
atgc intronic sequence ATGC exonic sequence...ttcttgcacaataaaatatgttaacatggtcatgtaaaaaggatgtctatacaaccttttctttaggcctcgcctgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
Basic information
species | Glycine max |
transcript | GLYMA16G30140.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G30140.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g39580.1 (Oryza sativa), 3'ss of exon 1
ttcttgcacaataaaatatgttaacatggtcatgtaaaaaggatgtctatacaaccttt-tctttaggcctcgcc-tgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
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tgataatttattaa--tgttttgtcttgttcagattactactcttttgttacaatagagatttccaagcatgatcataaacgaacttgttcctgaattccagGTGTGGAAGATACCCCCCAGTGGTGAAAACAGCTGTGCCTGTGGATGGTAGATTTGAGCATATAGTTCTTTCCTGCAATGCCACAATGGACCATGCCATT
upper sequence: GLYMA16G30140.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
---ttcttgcacaataaaatatgttaac--atggtcatgtaaaaaggatgtctatacaaccttttctttaggcctcgcctgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
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aactattaagtcaaaaagatatgttgatcaattttaaggtggcaggaaactttagac--tttgataactgggaaggacatg--tattaacatattttgtg-gcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatacaaccttttctttaggcctcgcctgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
aacatttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttgcacaataaaatatgttaacatggtcatgtaaaaaggatgtctatacaaccttttctttaggcctcgcctgaacatttaaacgtcttatatgcagAATGGGAAGGTTTCCCCCAGTAGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAGCATATAGTCCTTTCTTGTAATGCCACATCTGATCATGCCATC
- cttgcac
- - - - -aataaaa
- - - - - - - - - - - - catggtc
- - - - - - - - - - - - - - - - - -aaaaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcgcc