Sequence
atgc intronic sequence ATGC exonic sequencegtaagagtttttgtggtaaacaaatttaacgtggatttcccttgtaacacagttcaagaaattaaaggtgaactaatttgcttcagGTGGATAGAAATGATGGCTCCTGTTTTCTCAAGAGCTGCATGGCGTTGTGTTTGGTATATGATTCAG
Basic information
species | Glycine max |
transcript | GLYMA20G36160.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36160.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g00350.t01 (Vitis vinifera), 3'ss of exon 10
-------------------------------------------------------------------------gtaagagtttttgtggtaa--------acaaatttaacgtggatttcccttgtaacacagttcaagaaattaaag-gtgaactaatttgcttcagGTGGATAGAAATGATGGCTCCTGTTTTCTCAAGAGCTGCATGGCGTTGTGTTTGGTATATGATTCAG
| || | | | |||| || |||||| || || |||| | |||| |||| | ||| | | | ||||||||||||| |||||||||| || |||||||||| || ||||||||||| ||||||||||| |||
gtaatatttttacctaaaaggaaaaaataacttatttggttttgtgctttatctagctgaaaattatttgtttcttagtttccatattgtaactcaagaaacccatttaaaagaaatagaagctgc--ttaagttgaggaaactaaaatgagaatctgtattttacagGTGGATAGAAGTGATGGCTCCAGTCTTCTCAAGAGAGGCTTGGCGTTGTGTGTGGTATATGATCCAG
upper sequence: GLYMA20G36160.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S17_316V6.1 (Physcomitrella patens), 3'ss of exon 9
------------------------------------------------------------------------------------------gtaagagtttttgtggtaaacaaatttaacgtggatttcccttgtaacacagt-tca-agaaat---taaaggtgaactaatttgcttcagGTGGATAGAAATGATGGCTCCTGTTTTCTCAAGAGCTGCATGGCGTTGTGTTTGGTATATGATTCAG
| || | | || | || | | ||| | || ||| || ||| | | | | || | | |||| |||| ||||||| || |||||||| | ||||| ||||||||||||||||| |||||||||
gtaagcgtttccgtcatgaatgatgtgaaggatacatatcactatatatggtgggggtccataccaatccgggtttagttaacgaacattattaggatcgtgccctctcccattcccggtgatatcttaacaaattggacaatatcgtagacatgcataacgatacaggagttggatgtagGTACGTAGAGGTGATGGCGCCAGTTTTCTCCAAGGCTGCTTGGCGTTGTGTTTGGTACATGATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatttcccttgtaacacagttcaagaaattaaaggtgaactaatttgcttcagGTGGATAGAAATGATGGCTCCTGTTTTCTCAAGAGCTGCATGGCGTTGTGTTTGGTATATGATTCAG
aactaat putative branch site (score: 2)
tttgcttc CT-rich tract
ttcaagaaattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagtttttgtggtaaacaaatttaacgtggatttcccttgtaacacagttcaagaaattaaaggtgaactaatttgcttcagGTGGATAGAAATGATGGCTCCTGTTTTCTCAAGAGCTGCATGGCGTTGTGTTTGGTATATGATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC