Sequence
atgc intronic sequence ATGC exonic sequence...tctgttgctttctaaaaacatgttcaatatgattcagcatgttgcatgatgtgtttattaaataactcaaacatatcttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
Basic information
species | Glycine max |
transcript | GLYMA01G41800.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
-tctgttgctttctaaaaacatgttcaatatgattcagcatgttgcatgatgtgtttattaaataactcaaacatat--cttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
||||| || | | ||||| ||| | |||| | || | || | | | || | | | || | || | ||| | |||||||||| || || |||||||||||||||||| |||| || |||||||||| | | || |||||||| |||||| |||| ||||| ||||| ||||
ctctgtcactcatttttttgagacagaatattcctca-cttgtta-acttcctgccttctacgtta-tgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 1
-tctgttgctttctaaaaacatgttcaatatgattcagcat-gttgcatgatgtgtttattaaataactcaaacatatcttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
| ||| || ||| | ||| | | | | | | | | || ||| | | | || | ||| | ||||| | | |||||||||||||| |||||||| ||||||||| ||||||||||||||||| | ||| |||||||||||||||||||||||||||||| ||| | ||||
ctttgtacctcaataaggatcccttcccctccccccttccttgcctccctctctctgctttgaattaaccttgcttaa-tggccttctgggtatat-ggcagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTG
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 7
-tctgttgctttctaaaaacatgttcaatatgattcagcat-gttgcatgatgtgtttattaaataactcaaacatatcttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
| ||| || ||| | ||| | | | | | | | | || ||| | | | || | ||| | ||||| | | |||||||||||||| |||||||| ||||||||| ||||||||||||||||| | ||| |||||||||||||||||||||||||||||| ||| | ||||
ctttgtacctcaataagggtctcttcctctccccccttccttgcatccctctctctgctttgaattaaccttgcttaa-tggccttctgggtatat-ggcagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTGMapped 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|193416119|gb|FK376697.1|FK376697EST: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAG AGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACT
genomic: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAGgtaatttgaa ... atttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACT
EST:
gi|15814640|gb|BI786915.1|BI786915EST: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAG AGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACT
genomic: CAGATCACTGGAAATGTCCTCGAACTTATGCTAGTCCAGAGGCTATCCAGgtaatttgaa ... atttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatgtgtttattaaataactcaaacatatcttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
tttattaaataactca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgttgctttctaaaaacatgttcaatatgattcagcatgttgcatgatgtgtttattaaataactcaaacatatcttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
-ctgttgc
- - - - - - - - - catgttc
- - - - - - - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - -gcatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat