Sequence
atgc intronic sequence ATGC exonic sequencegtaagggtttgtgttttttgtttttttggttttttatgggtttggttgtgttttagatttgattttggatatggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
Basic information
species | Glycine max |
transcript | GLYMA06G20170.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G20170.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G74740.1 (Arabidopsis thaliana), 3'ss of exon 2
-gtaagggtttgtgttttttgtttttttggttttttatgg-gtttggttgtgttttag--atttgattttggatatggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
||| | | | || | ||| ||| | |||| | ||| || | || ||| | || || ||||||||||| |||||||||||| | || ||||||||||| || |||| || ||||| || |||||| |||| ||||| ||||| || ||||||||||||
gttaaagaaagatttgattcttgtttgaagttgtatatgctgattgagagtaactgagtgattcaaggttttg-attgcagAGACTGAACAAGGTGTGGCTCTTGCCATCTTGAGGGGAGTTCTTGATTTTAAGAGAGATCCTTGGTCGCAGATATCAGAGAGCGCAAAGAGCCTTGTGAA
upper sequence: GLYMA06G20170.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18890.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagggtttgtgtttt-ttgtttttttggttttttatgggtttggttgtgtt--ttagattt--------gattttggata----tggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
|| || | | ||| || |||| | | | || ||| | |||| |||||| |||| ||| | || |||||||||| |||||||| ||| | ||||||||| |||| || |||| || ||||| || |||||||| || ||||| |||||||||||||||||||||
gttagcttcttcttttaattattttagcagctgtgtaattgttcacctatgttgattagataaaccgataagattgtggtttctattgacagAGACTGAACAAGGTGTTGCTCTTGCGATCTTGCGGGGAGTTCTTGATTTTAAGAGAGACCCTTGGCCTCAGATATCAGAGAGTGCCAAGAGCCTTGTGAA
upper sequence: GLYMA06G20170.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g05520.t01 (Vitis vinifera), 3'ss of exon 2
----gtaagggtttgtgttttttgttttt-ttggttttttatgggtttggttgtg----ttttagatttgattttggatatg---gcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
| |||| || || || | | | || || | | || | ||||| | || | ||| | || | | | | |||||| || || ||||| |||||||| || || ||||| |||||||| || ||||||||||||||||||||||| || || | ||| ||||||||||| |
gtactttgtggttcttgaattgtgagtatgtctgtaattgttagattcgattgtgaagttgtttgcttttttgtttgctctttttgtagAGACGGAACAGGGTGTTGCTTTGGCAATATTAAGGGGGGTGATTGATTTTAAGAGGGAACCTTGGCCGCAAATTTCTGATAATGCAAAGAGCCTTGTTAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|208153262|gb|GD947091.1|GD947091EST: TGGGGTGATTCTTTATATTTTGTTGTGTGGGGTTCCTCCGTTCTGGGCAG AGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCA
genomic: TGGGGTGATTCTTTATATTTTGTTGTGTGGGGTTCCTCCGTTCTGGGCAGgtaagggttt ... gatatggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttggttttttatgggtttggttgtgttttagatttgattttggatatggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
atttgat putative branch site (score: 5)
ttttagatttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagggtttgtgttttttgtttttttggttttttatgggtttggttgtgttttagatttgattttggatatggcagAGACTGAGCAAGGTGTGGCTTTGGCGATCTTGAGGGGTGTGATTGACTTCAAGAGGGAACCTTGGCCGCAAATATCGGAGAGTGCCAAGAGCCTTGTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG