Sequence
atgc intronic sequence ATGC exonic sequenceTCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgattgtcctattgcttttcattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc...
Basic information
species | Glycine max |
transcript | GLYMA09G39770.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 5'ss of exon 11
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgt---catatgtgattgtcctattgcttttcatt-ttatcctttttgggtgtttgttccttctcatgtt-tttatttattgtagaaatgagcaaatttttc
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TCGTCCAATTTACAAGCAAATTGCTGAAAATAGGAACGCTGAGATATTTTCAGCAAATACTCTCCTTGTTATTTTTGGAACAAGTCTTCTCACAGCTCGGgtatgtatatttttcttattatatcccagccttgcatagttgcattccttgaatctactttgcatgttgttttactctctcatttcag-----------------
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G058948_T01 (Zea mays), 5'ss of exon 10
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgt--atgtcatatgtgattgtcctattgctttt-cattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc
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TCGGCCTATTTACAAGCAAATTGCTGAAAATCAGAATGCTGAGATATTTTCAGCAAATACACTCCTTGTTATTTTTGGCACAAGTCTTCTTACAGCCCGGgtttgtattctatatgcttattttctagcctttgcactgcttaaaagttaaaactacttttgattttatggtactactattcacag-----------------
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 11
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgattgtcctattgcttttcattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc
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CCGGCCTATTTACAAACAAATTGCTGAAAATCAGAATGCTGAGATATTTTCAGCAAATACACTCCTTGTTATTTTTGGCACAAGTCTTCTTACAGCCCGGgttcgttttctata--tgtttattttctagcctttacattgcttaaaactacta--ttgattttatggtct-attcacag--------------------
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: AT4G00630.1 (Arabidopsis thaliana), 5'ss of exon 10
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgatt-gtcctattgcttttcattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc
|| || ||||||||||| |||||||||| | |||||| || || ||||| ||||||||||| || ||||||||||| || ||| | |||||||| || |||||| | | | || | ||||| ||| | ||||| ||||| || | ||| || ||||| | |||||
GCGGCCGATATACAAGCAAATTGCAGAAAACCGAAATGCTGAGATATTCTCCGCCAATACACTTCTGGTTATTCTTGGGACTAGTTTACTTACAGCTAGGgtatgttcttgattttccgtgttggtgcttggtattctcgtaattttg---ctttgtcttttgtttcgttaagataaattgtttctttctttaaattag--
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 11
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgattgtcctattgcttttcattttatc--ctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc
||||||||| |||||||| |||||||||||| ||| || || || ||||| ||||| || || || ||||||||||| || ||| | || ||||| || ||||| | |||| | | | | |||| | | | || || || || ||| | || | || ||| ||
TCGACCAATCTACAAGCAAATTGCAGAAAATCGAAACGCCGAGATATTCTCTGCCAACACGCTTCTCGTTATTCTTGGGACTAGTTTACTGACAGCTAGGgtatgac---cgtgaccttgttggcattgagtagtttactgacatgccagtacttcccgtctgctaatttttccagtttctata--aatcag----------
upper sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 5'ss of exon 9
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgattgtcctattgcttttcattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc------
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TAGACCAATTTATAAGCAAATTGCTGAAAATCAAAATGCAGAGATATTTTCTGCCAATACACTTCTTGTTATCTTGGGGACTAGTCTCCTTACAGCCAGGgtat----tggatgcttttcataattattattattcttttcttataccaatcaagttgtgtctcccttttttcctta----agaaaaaatcatttttcttgaacagMapped 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|16996864|gb|BM086236.1|BM086236EST: CAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGA GCAGGACTTTCCATGGCATTGGGAGCATTTTTGGCTGGTTTACTACTGGCA
genomic: CAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcata ... cttaaaacagGCAGGACTTTCCATGGCATTGGGAGCATTTTTGGCTGGTTTACTACTGGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGACCAATATACAAGCAGGTTGCAGAAAATCAAAATGCAGAAATTTTCTCAGCCAATACACTCCTTGTTATTCTTGGCACAAGTCTTCTTACAGCCAGAgtatgtcatatgtgattgtcctattgcttttcattttatcctttttgggtgtttgttccttctcatgtttttatttattgtagaaatgagcaaatttttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttctc