Sequence
atgc intronic sequence ATGC exonic sequenceAGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgccattccatagattcaccactcattttgtcgctaaaacaaaacataattactagattatatcaatcaccagtgtactgtgatt...
Basic information
species | Glycine max |
transcript | GLYMA02G41810.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os05g38270.2 (Oryza sativa), 5'ss of exon 8
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatg-taatt----agtgccattccatagattcacc---actcattttgtcgctaaaacaaaacataattactagattatatca-atcaccagt-gtactgtgatt-----------------------------------------
|| || |||||||| || ||||||||||||||||||||||| ||| | ||||| || || |||||||||||| |||||||||| | |||||||| |||||| || |||| | || ||| | | | | | ||| | || || | | |||| || | | || | | |
TGGGCTATGGCATACTGTATGTACATCTGCTGATGGTGATGTATATTCCTTTGGAGGTAACCAGTTTGGGCAGCTGGGAACTGGATCAGATCAAGCTGAGgtagaattctaatcttcaggcacctcatactaggataatgtagatttgtcctgttgacaatctcttccacttccaaaaatctatactgcattgatactagttttagaaataaaaatgatcaattaatgccaggaccatcaatcttatgcag
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g62810.1 (Oryza sativa), 5'ss of exon 8
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatga-tgtaattagtgccattccatagattcaccactcattttgtcgctaaaacaaaacataattactagattatatcaat-caccagtgtactgtgatt
||| |||||||| || || || ||||||| ||||| ||||| ||| | || || || || |||||||||||| |||| |||||| |||||||||| |||||| | | ||| | | ||| | | || | || | | | | | | ||| | | | ||| || | |
AGGGCTGTGGCACACTGTATGCACATCTGTAGATGGCGATGTCTATTCCTTCGGAGGAAACCAGTTTGGGCAGCTGGGCACTGGTTCTGATCAAGCTGAGgtacaaattctattgagtaaagtgcattggtggtccttaaacttgtagggttgtgtcatata-ggtccctaaactctcgaaatgcatatctagatcccaga-
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G337819_T02 (Zea mays), 5'ss of exon 8
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgccatt-----cca-tagattcaccactcatttt-gtcgctaaaacaaaacataattactagattatatcaatcaccagtgtactgtgatt------------------------
||| ||||||| || || |||||||||| ||||||||||||||| | ||||| || || |||||||| ||| | || |||||| ||||||| || ||||||| | || | || | | ||| || | ||| || | |||| | | | | | | | | | | ||| ||||| |||| | | || |||
AGGTTTGTGGCACACTGTATGTACATCTGTAGATGGTGATGTGTATTCGTTTGGAGGAAACCAGTTTGGACAGCTTGGCACTGGTTCTGATCAGGCTGAGgtataaagttttcgatgttaatagatgccactatagtcaacatacttttttggtccatagagatgccgttagttttggatgatatc---cacctatctgatgacatttggcatctttgtatttcaatgcag
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G302245_T01 (Zea mays), 5'ss of exon 6
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgcca---ttccatagat----------tcaccactcattttgtcgctaaaacaaaacataattactagattatatcaatc----accagtgtactgtgatt------------------------
|| |||||||| || || |||||||| | ||||||||||| ||| | ||||| || || |||||||||||| | || |||||| ||||||| || ||||||| | || | | || | | |||||| ||| ||| | ||| || | | | | | | | ||| |||| || || | | ||| | | || |||
GGGTCTGTGGCACACTGTATGTACATCCGTAGATGGTGATGTTTATTCCTTTGGAGGAAACCAGTTTGGGCAGCTTGGCACTGGTTCTGATCAGGCTGAGgtataaagttttcaatgttaatacttaatagatgccactacagtcaacacacgtttgatcccatagagatgcccttagtac-agatgatgtccacctatgacctatctgatgacatttgacatctttttatttcaatgcag
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: AT3G55580.1 (Arabidopsis thaliana), 5'ss of exon 8
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgccattccatagattcaccactcattttgtcgctaaaacaaaac--ataattactaga--ttatatcaatcacc--agtgtactgtgatt------
||| || ||||| || ||| | || | ||||||||||| ||||| |||||||| || || ||||| ||||| || |||||| ||||||||| |||||| | | | | | | || | ||| | ||| | | || | || | || ||| ||||| | || | | | || | ||||
AGGTCTATGGCACACGACCTGCGCTTCATCGGATGGTGATGTTTATGCGTTTGGTGGAAACCAATTTGGCCAGTTAGGTACTGGTTGTGATCAAGCTGAGgtaaaaaatcttga-----actatattgtttccctggctattcta--gtaaatgctaatctgattatttctagaggccctgccactaaacttgaagtcatttgatctttcag
upper sequence: GLYMA02G41810.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv13s0019g02280.t01 (Vitis vinifera), 5'ss of exon 8
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgcc-attccatagattc--accactcattttgtcgctaaaacaaaacataattactagattatatca-atcaccagtgtactgtgatt
||| |||||||| || ||||| | ||||||||||||||||| || |||||||||||||||||||||| ||||| |||||||||| ||||||| | |||||||| || || | | || | || ||| ||| || ||||||||| || | | | || || | | | ||| || | || || | |
AGGCCTGTGGCACACTGTCTGCATTTCTGCTGATGGTGATGTCTACACATTTGGTGGGAATCAGTTTGGACAGTTAGGAACTGGTGTTGATCAACCTGAGgtatggtggaaatgattcccagtctataatttcccacaactcatttt-ccgtgagtagatggaatgataattttacgataccagagcatacgtttgttagc---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|298165190|gb|HO011239.1|HO011239EST: TTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAG ACTCTACCAAGACTAGTGGATTCGCCGAGTTTGAAAAATTTGCATGCTGAG
genomic: TTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgta ... ttcgaagcagACTCTACCAAGACTAGTGGATTCACCGAGTTTGAAAAATTTGCATGCTAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGACTGTGGCATACAGTCTGTACATCTGCTGATGGTGATGTGTATGCATTTGGTGGGAATCAGTTTGGGCAGTTGGGAACTGGTGCTGATCAAGCCGAGgtatgatgtaattagtgccattccatagattcaccactcattttgtcgctaaaacaaaacataattactagattatatcaatcaccagtgtactgtgatt
- - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT