Sequence
atgc intronic sequence ATGC exonic sequenceTGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatgggatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag
Basic information
species | Glycine max |
transcript | GLYMA08G24160.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01140.t01 (Vitis vinifera), 5'ss of exon 4
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatgggatatattaattaattcgttaattaa----ttgattgtttcacttatctatataatgcag---
|||||||||||| ||||||||| | || ||| ||||||||||||| ||||| ||| |||| ||||| ||||| | | ||||||||||| | ||||| || | | ||| | | ||| | | | | | | | || | | | | | || || | ||
TGCTTGTTGGGTAGAAGATCCATATGGGGATTCTTTCAAGAAGCACCTTGCTAGGCTCCCGGATTATATATGGATGGCAGAAGATGGAATTAAGATGCAGgttagatccaaaaatttttcttttttagagtttgttttgtatttgagattgaccttcattcaaagtcctaactttgataattttcattgagatatgcgga
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 5'ss of exon 8
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatgg-----gatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag------------------------------------------------------------------
| | |||||||| |||||||||||||| ||| |||||||||||| ||||| ||||| |||||||| |||||||| ||||||||||| | ||||| || | | | ||| | | | || | || | | || |||| | | | | || || | || | | || |||
TTCATGTTGGGTTGAAGATCCAAACGGGGATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATGGAATAAAGATGCAGgtcagaaaacaagttcaatcactaatctcccaaacagttgtagaaaaaatagataatat-ccagtcatctttttcttaaaatttttcaagta-cgcaattggtttgaagctatgcttttgtccctttcctgcctaattggttttgaaattgtcgattgttgcag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 5'ss of exon 8
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgt------acgtgtgtgtgggcgca-tgctattataaccaatgg--gatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag------------------------------------------------------------------
| |||||||| ||||||||||| || ||| |||||||||||| ||||| ||||||||||||| |||||||| | ||||||||||| | ||||| || || || | || | | | || || | | | | |||| |||| | ||| || || || | ||| | | ||||
CACATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTTTATATGGGTTGCAGAAGATGGAATAAAGATGCAGgtcagaagacaagttaattcaatcactaatctcccaaacagttgtaggaaaattagataat--atctattcatctttttcttaaaatatttcaagtgtgcaactggtttgaagctatgcttttatcctctcctgcctaaattggttttgaaattgtcgattgttgtag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 5'ss of exon 6
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctatta-taaccaatgggata--tattaattaattcgttaat--taattgattgtttcacttatctatataatgcag--------------------------------------------------------------------
| |||||||| ||||||||||| || ||| |||||||||||| ||||| |||||||||||||| |||||||| | ||||||||||| | ||||| ||| | | || | || | ||| | | | | | |||| | |||| ||||| ||| | | | | | | | |
CTCATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTATATATGGGTTGCAGAAGATGGAATAAAGATGCAGgtaagaagaca--agttaattcaatcactaatctcccaaacagttgtaggaaaattagataatatctgttgatctttttcttaaaattttttaggtatgcaactggtttgaagctgcttttatccctttcctgcctaattggttttgaaattgtcgattattgcag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01210.t01 (Vitis vinifera), 5'ss of exon 8
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctatt-ataaccaatgggatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag
|||||||||||| ||||||||| | || ||| ||||||||||||| ||||| ||| | |||||||| ||||| || | ||||||||||| | ||||| || | | | || || | || || ||| | | | | | | | ||| ||||| | | ||| |
TGCTTGTTGGGTAGAAGATCCATATGGGGATTCTTTCAAGAAGCACCTTGCTAGGCTGCCAGATTATATATGGATTGCAGAAGATGGAATTAAGATGCAGgttagatccaataattttttcctcttcagaatttattttgtatttgacattgaacatcattcaatgtcgattttcattgagatatgcag-----
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01470.t01 (Vitis vinifera), 5'ss of exon 1
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgt--gtgggcgcatgctattataaccaatgggatatattaattaattcgttaat--taattgattgtttcacttatctatataatgcag----------------------------------------------------------------------
| |||||||| ||||||||||| || ||| |||||||||||| ||||| |||||| ||||| |||||||| | ||||||||||| | ||||| || | || || | | || || | | | | |||| | |||| ||| || ||| | | ||| | | |
CACATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCAAAGATTTTATATGGGTTGCAGAAGATGGAATAAAGATGCAGgtcagaagacaagttaattcaatccctaatctcccaaacagt-tgtaggaaaattagataatatctattcatctttttcttaaaatatttcacgtgtgcaactggtttgaagctatgcttttatcctctcctgcctaaattggttttgaaattgtcgattgttgtag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 5'ss of exon 4
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatgg-----gatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag----------------------------------------------------------------
||| |||||||| |||||||||| || ||| |||||||||||||||||| ||||||||| |||| |||||||| | ||||||||||| | ||||| || | | | ||| | | | ||| | | |||| ||| | ||||| || || | | | | | |||||
TGCATGTTGGGTTAAAGATCCAAATGGGGATTATTTCAAGAAGCATCTTGCTAGGATCCCATATTATATATGGGTTACAGAAGATGGAATAAAGATGCAGgtcagaagacaagttcaatcactaatctcccaaataattttaggaaaattagacaat--atctgttaatctttttcttaaaatttttcaagtatgcaactggtttgaagttgcttttatccctttcctgcctaattggttttgaaattgtcgattattgcag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 12
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatggg-atatattaattaattcgttaattaattgattgtttcacttatctatataatgcag-------------------------------------------------------------------------------------
| | |||||||| ||||||||| |||| ||| |||||||||||| ||||| ||||| |||||||| |||||||| ||||||||||| | ||||| || | | | | ||| | | |||| | || | || | | | || ||| || || ||| | | | | || |
TTCATGTTGGGTTGAAGATCCAGACGGGGATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATGGAATAAAGATGCAGgtcagaaagcaagttcaatcactaatctccccaacagttgtagaaaaaattagtatctatttatttatttattttaacattaagtttgattgaagattttctgttaagcaactggtttaaagtaatgcatttagccctttcctgcctaattggttttgaaattgctgattgaaatgtag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 5'ss of exon 8
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatggg-atatattaat-taattcgttaattaattgattgtttcacttatctatataatgcag------------
| | |||||||| |||||||||||||| || |||||||||||| ||||| ||||| |||||||| |||||||| ||||||||||| | ||||| || | | | ||| | | |||| | ||| | || |||| | || | || || | | | | | | | ||| |
TTCATGTTGGGTTGAAGATCCAAACGGGAATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATGGAATAAAGATGCAGgtcagaaaacaagttcaatcactaatctccccaacagttatagaaaaaagtaatgcctttagccctttcctgcctaattggttttgaaattgctgattgaaatgtag
upper sequence: GLYMA08G24160.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 5'ss of exon 8
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgcta---ttataaccaatgg--gatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag----------------------------------------------------------------
|| |||||||| ||||||||||| || ||| |||||||||||| ||||| |||||||||||||| |||||||| | ||||||||||| | ||||| || | | | ||| | ||| || | | | | |||| |||| || || || || || | | | | | |||||
CGCATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTATATATGGGTTGCAGAAGATGGAATAAAGATGCAGgtcagaagacaagttcaatcactaatctcctaaacagttgtaggaaaattagataatatgt--gttgatctttttcttaaaatttttcaagtatgcaaatggtttgaagctgcttttatccctttcctgcctaattggttttgaaattgtcgattattgtagMapped 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|209716122|gb|BW662320.1|BW662320EST: CAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAA AGTTTTGGTAGTCAAGAATGGGATGCTGGCTTTGCTGTTCAAGCTTTTCTT
genomic: CAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgt ... tataatgcagAGTTTTGGTAGTCAAGAATGGGATGCTGGCTTTGCTGTTCAAGCTTTTCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTTGTTGGGTGGAAGATCCAAACGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTACTTATGGGTTTCTGAAGATGGAATGACCATGCAAgtacgtgtgtgtgggcgcatgctattataaccaatgggatatattaattaattcgttaattaattgattgtttcacttatctatataatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA