Sequence
atgc intronic sequence ATGC exonic sequencegtattgttgttattttttctttgtccattctgggatgttgagttctttttagatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
Basic information
species | Glycine max |
transcript | GLYMA02G05160.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 3'ss of exon 2
gtattgttgttattttttctttgtccattctgggatgttgagttctttttagatttttattat-tctattatgtggaata-----gGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
||| | | ||| | | || | | | ||| | || || || |||||| | | | | |||||| ||||| |||||||| || ||| | |||| ||||||||||||| |||||||||||| | | || ||||| || || ||||||||||| ||||| |||||
gtaatctggttgcgctgc---tatctaattctgcatgcttgttttcttctaccaagttattaagtttttccttcggaataccacagGTCAGGAGGATTACAACAGACTGAGACCACTGAGTTATCGTGGAGCTGATGTTTTCCTTCTGGCCTTCTCGCTAATCAGCAAGGCCAGCTATGAGAATGT
upper sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattgttgttattttttctttgtccattctgggatgttgagttcttttta-------gatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
||| || | || | || || || || ||| | | || | | ||||| | || | ||| |||||||| ||||| |||||| ||||||||||||| |||||||||||||||||||| | || ||||||||||| || ||||| |||||||| |||||
gtaatga-atgatgatccaattcataatccttggtgagagagctttccttgatgaatcggtcgaaattatgtttttggtttatgcagGGCAAGAGGACTATAACAGATTAAGACCTTTGAGTTACCGTGGTGCTGATGTTTTCATTCTTGCCTTCTCTCTCATTAGTAAGGCTAGTTATGAGAATGT
upper sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------gtattgttgttattttttctttgt--ccattctgggatgttgagttctttttagatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
|| | | ||| || | | | | | |||||| | | || | | | |||| || | | || | || ||| || ||||||||||| |||||| ||||||||||||| || ||||||||||||||||| ||||| |||||||| || || ||||| |||||||| |||||
gtactgactaaataatagggatcttacttagtagtagcggcagctatgggatttggggtc----tgaaacttttgttttgttgttgta---aacagGGCAGGAGGATTATAACAGATTAAGACCTTTGAGTTACCGCGGTGCTGATGTTTTCATCTTAGCATTCTCTCTTATCAGTAAGGCTAGTTATGAGAATGT
upper sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 3'ss of exon 3
--------------gtattgttgttattttttctttgtccattctgggatgttgagttctttttagatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
| || | |||| | || | | | || | | ||||| | | || | | | ||||| ||| || |||||||| || ||||| |||||||||||||||| || || |||||||||||||| || ||||||||||| ||||||||||| |||||||||||
gtagcttcacagtcacttgtttccttttttgttttcaattactaacaaacattttgattattttatggctctgaatttgttctctttggaacagGGCAGGAGGATTACAACAGATTGAGACCTTTGAGTTATCGCGGGGCAGATGTTTTCATATTGGCATTCTCTCTCATCAGCAAGGCCAGCTATGAAAATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattctgggatgttgagttctttttagatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
ttgagttctttttaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgttgttattttttctttgtccattctgggatgttgagttctttttagatttttattattctattatgtggaatagGTCAAGAGGATTATAATAGATTACGACCTTTGAGTTATCGTGGTGCTGATGTTTTCATATTAGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG