Sequence
atgc intronic sequence ATGC exonic sequencegtaatgaattgatattccactaattcaaatatttttactgggctttcctttaccttgtactaattgctttacttgtcacatcaatgatagATGGGATACGCCTATTCACGTGGATGCTGCAAGTGGTGGGTTTATTGCTCCATTCCTATATCCAGAGCTAGAATGGGATTTCAGACTCCCATTGGTGAAG
Basic information
species | Glycine max |
transcript | GLYMA08G09670.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G09670.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ18071 (Selaginella moellendorffii), 3'ss of exon 4
gtaatgaattgatattccactaattcaaatatttttactgggctttcctttaccttgtactaattgctttacttgtcacatcaatgatagATGGGATACGCCTATTCACGTGGATGCTGCAAGTGGTGGGTTTATTGCTCCATTCCTATATCCAGAGCTAGAATGGGATTTCAGACTCCCATTGGTGAAG
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-----------------------gtaaaatatctct-ctgtgttcgtcgagaaaaagcttgaaacttatcgttt-tcttgcct----tagATGGGATACTCCTATCCACGTTGATGCTGCCAGTGGAGGATTCATCGCTCCATTCCTCTATCCAGATTTGGAGTGGGATTTTCGATTGCCTCTTGTCAAG
upper sequence: GLYMA08G09670.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36644 (Selaginella moellendorffii), 3'ss of exon 4
gtaatgaattgatattccactaattcaaatatttttactgggctttcctttaccttgtactaattgctttacttgtcacatcaatgatagATGGGATACGCCTATTCACGTGGATGCTGCAAGTGGTGGGTTTATTGCTCCATTCCTATATCCAGAGCTAGAATGGGATTTCAGACTCCCATTGGTGAAG
| ||| || | | | ||| | | || |||| ||| | | ||||||| |||| ||||| ||||| ||||| || ||||| || || || ||||||||||| |||||||| | || |||||||| || | || | || |||
-----------------------gtaaaagatctcttt---gtgttcgtcgaggaaaagcttgaaacttttcttttt-ttttggccttagATGGAATACTCCTATCCACGTTGATGCCGCCAGTGGAGGATTCATCGCTCCATTCCTCTATCCAGATTTGGAGTGGGATTTTCGATTGCCTCTTGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactgggctttcctttaccttgtactaattgctttacttgtcacatcaatgatagATGGGATACGCCTATTCACGTGGATGCTGCAAGTGGTGGGTTTATTGCTCCATTCCTATATCCAGAGCTAGAATGGGATTTCAGACTCCCATTGGTGAAG
tactaat putative branch site (score: 1)
tactaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaattgatattccactaattcaaatatttttactgggctttcctttaccttgtactaattgctttacttgtcacatcaatgatagATGGGATACGCCTATTCACGTGGATGCTGCAAGTGGTGGGTTTATTGCTCCATTCCTATATCCAGAGCTAGAATGGGATTTCAGACTCCCATTGGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT