Sequence
atgc intronic sequence ATGC exonic sequence...tggatgtctactttcacaattatatgggttcacacgtggaattctacattgttgtatgaatttgtgtgtgacagtgacaaactgactgacctaaatgcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
Basic information
species | Glycine max |
transcript | GLYMA06G17450.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17450.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g33520.1 (Oryza sativa), 3'ss of exon 3
tggatgtctactttcacaattatatgggttcacacgtggaatt-ctacattgttgtatga-atttgtgtgtgac-agtgacaaactgactgacctaaatgcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
||| | | || | | | | | || ||||| | || || |||| | | | | | || || || | |||| | | |||||| ||| || ||||||| |||||| | ||||||||||| ||||| |||||||||||||||||||| ||||| ||||||
tggttcttccattatttagtcttttaaaag-atttgttgaattgtcatatgcttcgatgatgtgtctatttcaccagaagcataactcttgactttga--cagGTTGTCAGTAACCCAGAGAAGACACCGCTACATACCTTCTTCTGCAACTATGATTTGAGTGACATGCCTGCTGGAACCAAG
upper sequence: GLYMA06G17450.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G822842_T01 (Zea mays), 3'ss of exon 1
tggatgtctactttcacaattatatgggttc-aca------cgtggaattctac---attgttgtatgaatttgtgtgtgacagtgaca-aactgactgacctaaatgcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
|| |||| | | | ||| || ||| || | ||||| ||||| || || | | || | | || |||| | || |||||| | | || ||||||| |||||| | || ||||| || || | |||||||||||||||||||| ||||| ||||||
---------accttcaaattgctttggatttgacagtccttcgaaaagttctattagattgtcacatttatattgatttgcctatttcacaactctttactctcg--gcagGTGGTTAGTAACCCAGAGAAGACACCACTTCACACCTTTTTCTGTACCTATGATTTGAGTGACATGCCTGCTGGAACCAAG
upper sequence: GLYMA06G17450.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g00570.t01 (Vitis vinifera), 3'ss of exon 3
tggatgtctactttcacaattatatgggttcacacgtggaattctacattgttgtatgaatttgtgtgtgacagtgacaaact-gactgacctaaat---gcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
| | | | || | | || | || | | | | ||| | | |||| || | || | || | ||| | | |||||| || | ||||||||| | ||| || || || ||||| |||| || ||||||||||||||||||||| |||||||||||
--ggagcttctatacattgagcagtagaatctgaaatgatacttgtga--gacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acattgttgtatgaatttgtgtgtgacagtgacaaactgactgacctaaatgcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
tatgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggatgtctactttcacaattatatgggttcacacgtggaattctacattgttgtatgaatttgtgtgtgacagtgacaaactgactgacctaaatgcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
tggatgt
- - - - - ctttcac
- - - - - - - - - - - - - - ttcacac
- - - - - - - - - - - - - - - - - - - - - -ctacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagtgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgactg