Sequence
atgc intronic sequence ATGC exonic sequencegtgagtattagttctgctatacctattgaaatagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG
Basic information
species | Glycine max |
transcript | GLYMA17G03430.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ31557 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtattagttctgctatacctattgaaatagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG
|| | | ||| | | | | | | ||||||| | || || | || ||| | || || || || || ||||||||||||||||| |||||||| ||||||||||| || ||| | || || |||
--------------------------gtaagtcgtgtctttagctgtgacttttaactgggctgacgttcctgg------ttccagGTATCCTTCACCGAATGTTCTCATTCCTGCTCTTCGTACGGTGGGAAACATTGTGACTGGTGACGATGTCCAAACGCAG
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ31559 (Selaginella moellendorffii), 3'ss of exon 2
gtgagtattagttctgctatacctattgaaatagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG---------------------
|| | | ||| | | | | | | ||||||| | | || || | || ||| | || || || || || ||||||||||||||||| |||||||| ||||||||||| || ||| | || || |||
--------------------------gtaagtcgtgtctttagctctgacttttaactggcctgacgttcctgg------ttccagGTATCCTTCACCGAATGTTCTTATTCCTGCTCTTCGTACGGTGGGAAACATTGTGACTGGTGACGATGTCCAAACGCAGGAAAACTTGAAACGGAACAAC
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ38593 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtattagttctgctatacctattgaaatagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG
|| | | ||| | | | | | | ||||||| | | || || | || ||| | || || || || || ||||||||||||||||| |||||||| ||||||||||| || ||| | || || |||
--------------------------gtaagtcgtgtctttagctctgacttttaactggcctgacgttcctgg------ttccagGTATCCTTCACCGAATGTTCTTATTCCTGCTCTTCGTACGGTGGGAAACATTGTGACTGGTGACGATGTCCAAACGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG
tcttaac putative branch site (score: 2)
tgcttttc putative PPT
ttgttttaattgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtattagttctgctatacctattgaaatagattctgttgttttaattgttaactgtcttaactttgtatgcatgcttttcagACACCCATCTCCCTCAGTGCTGATTCCTGCTCTTCGTACAGTGGGAAATATTGTGACTGGAGATGATATGCAGACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG