Sequence
atgc intronic sequence ATGC exonic sequence...ttattatcatttgaaccatttttaaaacgtacatattgtcttcctgatttagtgattttgaaaggcaaatagatgatttgaatgcaactgttgaatgcagAGTGATGTATTTTTGATTTCCTCAAATGCAATGCAATTCAATGCGGCGGAGACCATATACCACAAACAG
Basic information
species | Glycine max |
transcript | GLYMA14G02590.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02590.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G55040.2 (Arabidopsis thaliana), 3'ss of exon 5
ttattatcatttgaac-catttttaaaacgtacatattgtcttcctgatttagtgattttgaaaggcaaatagatgatttgaatgcaactgttgaatgcagAGTGATGTATTTTTGATTTCCTCAAATGCAATGCAATTCAATGCGGCGGAGACCATATACCACAAACAG
|| | | | |||| | | ||| ||| || ||| || || | | | | || | | |||||||||||| ||||| || ||||||| ||||||||||||||||| |||| | | || || | ||| | ||||||
-tagaactgctctagtgtatttgctaggatcatgtataatctataccgttgcttgacttcctttactaacctggttttggaactgtatttcttgaatgcagAGCGATGTCTTATTGATTTGCTCAAATGCAATGCAATACAATTCCTCAGACACTGTCTACTATAAACAG
upper sequence: GLYMA14G02590.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 5
ttattatcatttgaaccatttttaaaacgtacatattgtcttcctgattta-gtgattttgaaaggcaaatagatgatttgaatgcaactgttgaatgcagAGTGATGTATTTTTGATTTCCTCAAATGCAATGCAATTCAATGCGGCGGAGACCATATACCACAAACAG
||| ||||||| || | | | | || ||| || |||| | | | | | | | | | || | ||||||| ||||||| || ||| |||||| | | ||||||||||||| |||||| | || ||||||||||| ||||||
-gatttgaatttgaattccttctcccaagaaaccatgttctgatagaaaagtgtgactctttatatgtattggcttgtaaaattggttttcttgaatgtagAGTGACGTTTTTCTGATTTGCACCAATGCAATGCAATACAATGCCCCAGATACCATATACCATAAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttagtgattttgaaaggcaaatagatgatttgaatgcaactgttgaatgcagAGTGATGTATTTTTGATTTCCTCAAATGCAATGCAATTCAATGCGGCGGAGACCATATACCACAAACAG
tcctgat putative branch site (score: 3)
attttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattatcatttgaaccatttttaaaacgtacatattgtcttcctgatttagtgattttgaaaggcaaatagatgatttgaatgcaactgttgaatgcagAGTGATGTATTTTTGATTTCCTCAAATGCAATGCAATTCAATGCGGCGGAGACCATATACCACAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgca