Sequence
atgc intronic sequence ATGC exonic sequence...tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC
Basic information
species | Glycine max |
transcript | GLYMA18G29400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G29400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 7
tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCAT-TGT-TACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC-----------------------
|| | | | | | | | | |||| || | || || | ||| ||| | || ||| || |||||| |||||||| ||||||||||| ||||| ||||||||||||||||||||||| | || ||||| || ||
----------------------------------------gtaaaacgtta--tcttagtagacaaatgtcctattcttcaccctgaaaaatccagtca---ttgattcgtatatatgtgtatagCAACCGAAGAGGAAGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGAATCAACGCAGTAACTAACTTTGAGATGAACAGGTATGACATTGA
upper sequence: GLYMA18G29400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC-----------------------
||| | | | |||| || | | ||| | | || | || | |||| || | |||| | | | | | || |||| || |||||||| ||||||||||||||||| || ||||||||||||||||| |||| | ||| || |||||||||
--------ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctca----aaaagaagcatattgttcacat-----------aataatcccttgtaactcgtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
upper sequence: GLYMA18G29400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 6
tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC-----------------------
||| | | | |||| || | | ||| | | || | || | |||| || | |||| | | | | | || |||| || |||||||| ||||||||||||||||| || ||||||||||||||||| |||| | ||| || |||||||||
--------ggtcactggacgtgctataattaggctaatgtcttaaaagaggggtctca----aaaagaagcatattgttcacat-----------aataatcccttgtaactcgtggtatcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC
attttgtttgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatagcatgtcttgaaagttaaaacaatttttcttacatgttagataatggttaccattttgtttgttttttattttttattcttttgaacttgaatagTTTTGGTTCATGCATTGTTACAGCAACTGAAGAGGAGGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAGTGCCGTAACCAATTTC
- - -gcatgtc
- - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - -tacatgt