Sequence
atgc intronic sequence ATGC exonic sequence...aaaatttaatcctatcattgttatagctgtcttcgaattgaaataaatttgctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
Basic information
species | Glycine max |
transcript | GLYMA15G01680.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 12
aaaatttaatcctatcattgttatagctgtcttcgaattgaaataaatttgctctagggaatacttagtttagt----tggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
| ||| | ||| | | || | |||||| | || | || | || | | | | | | || | ||| || || | ||||| |||| | | | || || ||||||||||||||| | || || ||||| | ||| |||||||||| |||| |||||||| ||||||||||||||||
----taaggaccttttattaatgaatttggcaaagaattgcacatcatattctgttggcatttatcaatattgtatcttctggtttgaatgatccaatatgcagGAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGAATATTATTGGCGATGTGTTCCAGTGATTTCATTTGCTTTTATGACTGGG
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
-aaaatttaatcctatcattgttatagctgtcttcgaattgaaataaattt--gctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
|||| | | | || | |||| | || | || | ||| | || || || | | | | || || || | | | |||||||| |||| | | |||| || |||||||||| || | || || ||||| || |||| ||||| || | |||||||||||||||||||||||||
gcaaatgtgaa---gtttctgatctagccatatttcacaaaaagcacattctaatcttttggtattctcattgtcctgtgacttaaattatctgatttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 12
-aaaatttaatcctatcatt--gttatagctgtcttcgaattg-aaataaatttgctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
| | || | | |||| | ||| || || ||||| ||| | || | | | | |||| | | || | ||||||||||||||||||||||||||||||||||||||||| || || || || |||||| |||| |||||||| || ||||| || || || ||||||||||
tattgcctgccactgttgtctggttacaagtgttaggtaaatgcaaatatattcctgttcggagaaattcaacagagtttaa--tgaagtggca--tctttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAGCATATTTTTGGAGGAACTTTATTGGCAATGTGCTCAAATGATTTTATTTGTTTCTATGACTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
aatttaaacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatttaatcctatcattgttatagctgtcttcgaattgaaataaatttgctctagggaatacttagtttagttggaatttaaacaatgggtatttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAAAGAATATTCGGTGGCACTTTACTGGCGATGTGCTCCAACGATTTCATCTGCTTTTATGACTGGG
- - - - - - - - - - - - -gctgtct
- - - - - - - - - - - - - - - - - - - - aaataaa