Sequence
atgc intronic sequence ATGC exonic sequencegtacttgtaaaattcccctcatattttattttcgataaaataacttgtcaaacttcacactaacactggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
Basic information
species | Glycine max |
transcript | GLYMA18G33560.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G33560.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G153602_T04 (Zea mays), 3'ss of exon 2
-----------gtacttgtaaaattcccctcatattttattttcgataaaataacttgtcaaacttcacactaacactggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
| | | || |||| | |||| || | || | | | | ||| || | | | || |||| ||| ||||||| |||| | | | || || | || ||||| ||||| |||||| |||| | ||||| ||||| ||||||||||||||||| ||||||||
gtcagtctaccaagcacg-atgctttacctcttgtttttagagcgttgccatgagtctccgatgttctcatctgctccatgttctgtttgc-----agTGGAAGAAGGATATGTTGCGAAAAAGCTCTTTTGCATGGGATGTAAAGCTCGTCTGGGACAGTTCAATTGGGCTGGTATGCAGTGCAGCTGCGGAGCCTG
upper sequence: GLYMA18G33560.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G076665_T01 (Zea mays), 3'ss of exon 3
-----------gtacttgtaaaattcccctcatattttattttcgataaaataacttgtcaaacttcacactaacactggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
| | | || |||| | |||| || | || | | | | ||| || | | | | || |||| ||| ||||||| |||| | | | || || | || ||||| || || |||| | |||| | ||||||||||| ||||||||||||||||| |||||||
gtcagtctgccaagcacg-atgctttacctcttgtttttagagcgttgccatgagtctccgatgttctcatctgctccgtgttctgtttgc-----agTGGAAGAAGGATATGTTGCGAACAAGCTCTTTTGCATGGGATGCAAAGCTCATCTGGGACAGTTCAACTGGGCTGGTATGCAGTGCAGCTGCAGAGCCTG
upper sequence: GLYMA18G33560.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g02430.t01 (Vitis vinifera), 3'ss of exon 4
gtacttgta-aaattcccctcatattttattt-----tcgataaaataacttgtcaaactt--cacactaacact-ggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
|| || ||| | ||||||||||||| | ||||| | | || || | || |||||| | |||| ||| | | || |||||| ||||||||||| || ||||| || | || ||||| || || ||||| ||||||| |||||||||||| || |||||||||||||||||||| ||
gtcagcgtctaaacccaagtcatattttatttaaaaacccataaatttgttcttctaaactagcagactaacctttggattgtgaattatatgcagTACATGAAGGTCATGTAGAAGAGAAGCTGCAATGCATGGGCTGCAAAGCTCGATTGGGTTCCTTCAACTGGGCAGGCATGCAGTGCAGCTGTGGAGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgataaaataacttgtcaaacttcacactaacactggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
ttgcttt CT-rich tract
aaataactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgtaaaattcccctcatattttattttcgataaaataacttgtcaaacttcacactaacactggatattgattgctttgaagTACAAGAAGGTCATGTGGAGGAGAAACTTCTCTGTATGGGTTGTAATGCTCGTTTGGGTTACTTCAACTGGGCCGGTATGCAGTGCAGCTGTGGAGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG