Sequence
atgc intronic sequence ATGC exonic sequenceAAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttgactctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg...
Basic information
species | Glycine max |
transcript | GLYMA12G04220.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04220.3 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os07g10130.1 (Oryza sativa), 5'ss of exon 7
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgttt------gactctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg
|| |||| ||| ||||| ||||| ||||| |||||||| || || ||||||||||| ||||||||| | || |||||| |||||||| ||||||||||||| | | ||||| | | | | | |||| | |||| | | || | | | | ||| | | | | |
CAATATTACTCGGGATTACCTGGAGGACATAAATGAGATACCAAAATCACGCATGTTCTGGCCACGAGAAATATGGAGTAAATATGTTGACAAACTTGAGgtatacgggtgcatctattttgtgtaagggt-tgtcataccttcgtctgttttcagacctgatatatattgttttgattacttttttgacactgattttta-----
upper sequence: GLYMA12G04220.3 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G108225_T02 (Zea mays), 5'ss of exon 7
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttg-actctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaataca-cgtcccaagg---
||||| ||| | || ||| |||| ||||| |||||||| || ||||| |||||||| ||||| ||| |||| |||||| |||||| | ||||||||||| | ||| | | | || | ||| ||||| | | | || | || ||| || ||| | | | | || |
TAACATAATTAGGGACTATTTGGAGGACATAAATGAGATACCAAAGTCCCGCATGTTCTGGCCTCGAGAGATATGGAGTAAATATGCAGATAAACTTGAGgtacacaaaatattcaactttttactgctattgagtagattcacttatggaat---atgttctaagactaaattatc--atgcatcctgtagtatttcatgatat
upper sequence: GLYMA12G04220.3 (Glycine max), 5'ss of exon 7
lower sequence: AT4G34640.1 (Arabidopsis thaliana), 5'ss of exon 7
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttgactctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg---
||||||||| |||||||||| || ||||| |||||||| || || || |||||||||||||| || |||||||| | |||||| | |||| |||||||| || | | || | | || | ||||| | | || || | | | | | | | || |
AAACATTATCAGAGATTATCTTGAGGACATTAATGAGATACCAAAATCCCGCATGTTTTGGCCTCGCGAGATTTGGGGCAAATATGCTGACAAGCTTGAGgtgcatacataccactctcaagctctcatcttaggtc-tgatgttacccatattgactattttctgacagtgcctttttggtgatttgtaaattgtaatgtag
upper sequence: GLYMA12G04220.3 (Glycine max), 5'ss of exon 7
lower sequence: AT4G34650.1 (Arabidopsis thaliana), 5'ss of exon 7
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttg-actctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg
||||||||| ||||||||| |||||||| ||||||| || ||||| |||||||||||||| || |||||||| | |||||||| ||||||||||||| | || || | | | || | | || | |||| || || ||| | | |||| ||| | |
AAACATTATCAAAGATTATCTTGAAGACATTAATGAGAGACCAAAGTCGCGCATGTTTTGGCCTCGTGAGATTTGGGGAAAATATGTTGACAAACTTGAGgtacataaacttcactctcaagctct-catctgaagatcttatattataaa-------aaacaaatgtgactctttctaataatgtag-------------
upper sequence: GLYMA12G04220.3 (Glycine max), 5'ss of exon 7
lower sequence: Vv03s0038g00450.t01 (Vitis vinifera), 5'ss of exon 7
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttgactctatacgataggaatttatatttaacctc--attttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg--
||| || || |||||||||||||| || || ||||||||||| |||||||||||||||||||| || ||||||||||| |||||||||||||||||||||| || | || | | ||| ||||| || | | || | | |||| ||| || ||| ||| || | ||| |
AAATATAATCCGAGATTATCTGGAGGATATAAATGAGATCCCAAAGTCACGCATGTTTTGGCCCCGTGAGATTTGGAGTAAATATGTTAACAAACTTGAGgtgtgtccctttcccata---ttttattttcagattatagttgtatctatgagtttatctgtcattttgattctttcatgatgtaatgca-gtatcctataattMapped 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|13482207|gb|BG511550.1|BG511550EST: GCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAG GATTTGAAATATGAGGAGAACTCTGTTAAGGCAGTGCAATGCTTAAATGAC
genomic: GCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttgactct ... ttgtgtccagGATTTGAAATATGAGGAGAACTCTGTTAAGGCAGTGCAATGCTTAAATGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTGAATATGTTAACAAACTTGAGgtttgactctatacgataggaatttatatttaacctcattttgttatgaagttagaaaatcaattcctgcattttccaatgaaaaatacacgtcccaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaata