Sequence
atgc intronic sequence ATGC exonic sequenceTAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtcatgtaatttatttattaatgcacatattgtgtttgtgaag
Basic information
species | Glycine max |
transcript | GLYMA02G45240.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g46410.1 (Oryza sativa), 5'ss of exon 6
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatc---ttgcacttaaat-atgcactctat-aggtcatgtaat-ttatttattaatgcaca-tattgtgtttgtgaag-----------
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TAGTTGCAATAGCTTACACAATGTTGTCAGGGGAGGGTCAGTTCTACACATACATGGTTCTTATTTCAGAAACAACCACCCCTGAAATTAACTTGAGATGgtaagcaagttgagcatgtttcatttcttgtatgaagtcatttcatctcagttatttggttataacattctgatgctcggatttattttaag
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g43540.1 (Oryza sativa), 5'ss of exon 6
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtca--tgtaatttatttattaatgcacatattgtgtttgtgaag---------------------------
| || ||| | | | | ||| | ||||||| || ||| |||||||||||||| || ||||| ||||| ||||| ||||| |||||| | ||||||||| | | ||||||| || | | | | | | | | ||| || | | | | |
TTACTGCTGTAACGTATACTATGCTTTCTGGGGAAGGACAGTTATACACATACATGAGTCTCATCTCAGAGACTACTACACCTGGAATCAACCTAAGATGgtaactgagtatacaaatatgttgcatagaattttgttttggtatcatcttcaatccat-cagtccatctaaactgctattctctcccctttgtgttatcaag
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G132084_T04 (Zea mays), 5'ss of exon 7
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtcatgtaatttatttattaatgcacatattgtgtttgtgaag--------------------
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TGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCACCCCTGAAATCAACTTGCGATGgtaa----gaaattgaatattt-ttttcttcttgaagttaattcttaatcatcg-acactatttgattcgaatgtactgttcttttcttctaag
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G016184_T02 (Zea mays), 5'ss of exon 6
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaa---tct-----tgca-------cttaaatatgcactctataggtcatgtaatttatttattaatgcacatattgtgtttgtgaag
| || ||| || | | |||||||| ||||||| || ||| | |||||||||||||| || || || |||||||| || |||| ||||||||| |||||||| || |||| | || | || || | | |||| || ||||| || | || | ||| | |
TGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCACCCCTGAAATCAACTTGCGATGgtaagaaactgaaaatgcaaaattgtttgaagttaattcttaatcgtcaacactatttgatt-ctaatgtactttttttctttttaag-
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM5G825226_T03 (Zea mays), 5'ss of exon 6
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtcatgtaatttatttattaatgcacatattgtgtt-tgtgaag---
| | | || | | | |||| ||||||| || ||| | |||||||||||||| || |||||||| ||||| || ||||| |||||| | ||||||| | |||||||||| | | | || | | || |||||||| | |||| ||| |
TTATTTCTATAGTCTATGCTATGTATTCTGGGGAAGGACAGTTGTACACATACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATGgtatgtgatgaaacgaatatgcactgtttttttatcatactct-ttacttaatgcatctgacctgttctgtcatcaag
upper sequence: GLYMA02G45240.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv12s0028g01000.t01 (Vitis vinifera), 5'ss of exon 5
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtcat------gtaatttatttattaatgcacatattgtgtttgtgaag
||| ||||| ||| | |||||||||||||||| || || || ||||| |||||||| || |||||||||||||| || || |||||||| |||||||||||| ||| | | | | | | |||| | | | | ||| || || || ||| |||||| |
TAGCTGCAGTGGCATATGCAATGTTGACTGGGGAAGGGCAACTTTACACCTACATGGTTCTTATCTCTGAGACAACAACCCCAGGGATCAATTTGAGATGgtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgtaag-Mapped 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|254325459|gb|GR838340.1|GR838340EST: TACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATG GTATCTTGATGCAGCTGGAATGAAGAAGTCAAATGCTTATCTCATCAATGG
genomic: TACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgc ... gtttgtgaagGTATCTTGATGCAGCTGGAATGAAGAAGTCAAATGCTTATCTCATCAATGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGTAGCAGTATCATTTTCAATGTTGACTGGGGAGGGTCAGCTATACACATACATGGTCCTGATCTCTGAGACAACTACTCCTGGGATCAACTTGAGATGgtaatcttgcacttaaatatgcactctataggtcatgtaatttatttattaatgcacatattgtgtttgtgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG