Sequence
atgc intronic sequence ATGC exonic sequencegtaggtactaaagaacttatgaagtttacagattcgagttccaagtatgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
Basic information
species | Glycine max |
transcript | GLYMA02G46450.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g40840.1 (Oryza sativa), 3'ss of exon 6
gtaggtactaaagaacttatgaagtttacagattcgagttcca-agtatgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
|| | || | | | | || | || || ||||| | | | || |||||||||| | |||||||| || || |||||||| ||||| || ||||||||||| ||||| ||||| | ||| | || || ||||| |||| || | |
------gttaggagattttcttctcaaagtgctcctaggagaatagcataatattttgtctgacatgttttgcgctccaaagGCTGAACTTGAAGTTGAAAGGCTGGATCAGCTCAAAGCTAGTAGGATGAAGGATATTGCGTTCAAAAGGCAGACTGAACTTGAAGATATATATGCCCAGG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g20370.1 (Oryza sativa), 3'ss of exon 6
------gtaggtactaaagaacttatgaagtttacagattcgagttccaagtatgatatt--aactgtttttttccttt--aataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
|| | |||| || || | | || | || | | | | || ||| | || ||| | ||||||| || || ||| | || || || ||||| ||| ||||| |||||||||||| ||||||||||||||| | ||| | ||||| || | || |||
gtgagattaaacagtaaatcttttttggtgcaattactgtctgacactaatccttccactgcatttgactttctgtttccaaattgttcagGCTGAGGTAGAGGTTCAAAGGCTAGACCAGCTAAAATACAGCAAGATGAAGGAAATAGCTTTCAAGAAGCAAACTGAGTTGGAAGACATCTATGCTGGTG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G101874_T01 (Zea mays), 3'ss of exon 7
gtagg---tactaaagaacttatgaagtttaca---gattcgagttccaagtatga--tattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
|| | || ||| | || || | | || ||| || | | || | | ||| ||| || | ||||||| || || ||| | || | || ||||||||| ||||| |||||| ||||||||||||||||||||| | ||||| ||||| || | | |||
gtgagtcttagtaattattttttggtgctatcacctgatatgaagtattcctttggcctgcttgacatttacttctccatattgttcagGCTGAGGTTGAGGTTCAAAGGTTAGACCAGCTGAAATACAGCAAGATGAAAGAAATTGCTTTCAAGAAGCAAACCGAGCTGGAAGATATCTACGCTGGTG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G112337_T04 (Zea mays), 3'ss of exon 6
----------------------------------------------------------------------------------------------------gtaggtactaaagaacttatgaagtttacagattcgagttccaagtatgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
|| | |||| |||| | | ||| | ||| || || || ||||| | || |||| | |||| ||| | |||||||| || ||||||||||| ||||| || ||||||||||| ||||| |||||||| || | || || ||||| |||| || | | |
gttagaaactggtttcttttcagagtgttcattggtcttgttaaatactccctccgttctcgaatatttgtcgcccgctagttcatttttgaactaaaacgtgacaaataaaaaactggagggagtaacattct---gttgtctgtgtgttaataactctccttgcactttca------agGCGGAACTCGAAGTTGAAAGGCTTGATCAGCTAAAAGCTAGTAGGATGAAGGATATTGCATTCAAGAAACAGACTGAACTTGAAGATATATATGCCCGGG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaggtactaaagaacttatgaagttt--acagattcgagttccaagta-tgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
||| | || || | | || | | || | | ||||| || | |||| | || | | | | | |||||||| |||||||| || || |||||||| |||||| | ||||| |||||||||||||| ||||| |||||| ||||||| || ||||||| || |||
----gtatcgta-aatttgtaatgtatcaatcaatgtgtatgataagtactgcttttaaaaatcttct--gtgaactcttgaagGCTGAGGTGGAAGTGGATAGGCTTGATCAACTGAAATCTAGCAGAATGAAGGAAATTGCATTCAAAAAGCAATCAGAGCTTGAGGAGATATATGCTCGTG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: AT5G55230.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaggtactaaagaacttatgaagtttacagattcgagttccaagtatga--tattaactgttttt-ttcctttaata---ataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
||| | || | | | || || || | || | | | | || | || | | ||| | ||| | | |||||||| ||||||||||| || ||||| ||||||||||| ||| | ||||| |||||||| |||||||||||| | ||||| |||||||||| || |||
gtaatttatattgcattgatcaatcttcctatgtcctctcttagaaaccagttactgcttgctaatattcatgtaaaatttgtgaagGCTGAGGTGGAAGTTGATAGGCTTGACCAGCTGAAAGCTAGCCGAATGAAAGAAATTGCGTTCAAGAAGCAATCTGAGCTTGAAGAGATATATGCTCGTG
upper sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------gtaggtactaaagaacttatgaagtttacagattcgagttccaagtatgat-attaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
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gtatttggcttcagaacagtaatgcttaattttggcttcagaa-tagtaatgtttaatggataatgctggcagtttattcattttactttgttttccttttgttgctaagGCTGAGGTGGAAGTTGAAAGGCTTGATCAACTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAGGCAAGCTGAGCTCGAAGAGATATTTGCCCGTGMapped 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|192323992|gb|FK018683.1|FK018683EST: TTGATGAAGTCACTGTTCCTGGTGCCCTTGCTCTGGATCTGATTGAGCAG GTTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAG
genomic: TTGATGAAGTCACTGTTCCTGGTGCCCTTGCTCTGGATCTGATTGAGCAGgtaggtacta ... aataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacagattcgagttccaagtatgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
ctgtttttttccttta CT-rich tract
tatgatattaactgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtactaaagaacttatgaagtttacagattcgagttccaagtatgatattaactgtttttttcctttaataataaagGCTGAAGTGGAAGTTGAGAGACTTGATCAGCTGAAAGCCAGCAGGATGAAGGAAATTGCTTTCAAGAAGCAAGCAGAGCTCGAAGAGATATTTGTCTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA