Sequence
atgc intronic sequence ATGC exonic sequence...tatttactgtctgaatgcaaaaatttaagaagctttatttttttttattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
Basic information
species | Glycine max |
transcript | GLYMA13G16170.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 8
tatttactgtctgaatgcaaaaatttaagaagctttatttttttttattgagcttgatgcataaactaatttactttttaa---ttgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
| || | |||| || | | ||| || || ||| | | || | | | | ||| || || | ||||||||||| |||||||| | || |||||||| || ||||| ||||| ||| | || |||| | ||||||||||||||| |||||||||| |||||||||
tcttgataaggaaaatgtgct--ttgacacatacaaattacttggtaatgaagtgactttttagattg-tgtgcttcagaacattttcgtcctctcttttcagGATGCCAAGAAAGGGATGCTTTTTATTGACTTCCCTCCAGTCCTGCAAGTTCAATTAAAGCGGTTTGAATATGATTTTGTGCGGGATACCATGGTTAAG-
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G071441_T02 (Zea mays), 3'ss of exon 4
tatttactgtctgaatgcaaaaatttaagaagctttattttt-----ttttattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
|| || | | | || | || | || ||| ||| ||| ||| || || ||| | | ||||| | | || ||||||||||| |||||||| | || |||||||| |||||||| || || ||||| ||| ||||| | ||||||||||||||| |||||||||| ||| | |||
taatttttttgggtcattaagtggtccctgagttctaatttaggaagcattaatgaacttaatacaaaaa--agctgctgctttaaagat---tttttttttcagGATGCCAAGAAAGGAATGCTTTTTATTGACTTTCCTCCAGTTCTGCAACTTCAGTTAAAACGGTTTGAATATGATTTTGTGCGGGATACGATGCTCAAG-
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 8
--------tatttactgtctgaatgcaaaaatttaagaagctttatttttttttattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
||||||| |||| | | | | || | | || | | || |||| | ||| || | | | |||| |||| ||| || | ||||||||||| ||| |||||| |||| ||||| || ||||||||||||||||| ||||| || ||||||||||||||||||||||||| |||||||| |||
gggtttcatatttaccgtcttacccctttgtcatgaaaacc----tcattctatgtttcgctt--tccatcaagtgact--gttttgaatttggtatgcttgtctcagGATGCTAGGAAGGGTGTCTTATTCATTGACTTCCCTCCTGTCCTTCAACTTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAG-
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ19227 (Selaginella moellendorffii), 3'ss of exon 8
tatttactgtctgaatgcaaaaatttaagaagctttatttttttttattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
| || | | | || | || || |||| ||||| ||||||||||||||||| || || ||||| |||||||| ||||| || || | || || || ||||||||||||||||| | || || || ||||| |||
----------------------------------gtgaccttcctattcacgtttagaatgcag-ctgatgggctttcaaattg-------------cagGATGCTAAGAAAGGAGTGCTCTTTATAGATTTTCCACCTGTTCTCCAGTTACAACTGAAGAGATTTGAATATGATTTCACTCGCGACACGATGGTCAAG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
ttatttc CT-rich tract
ataaactaatttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttactgtctgaatgcaaaaatttaagaagctttatttttttttattgagcttgatgcataaactaatttactttttaattgtacatgattatttcagGATGCTAAGAAAGGTGTCCTATTTATTGATTTTCCTCCTGTCCTTCAACTCCAGCTAAAAAGATTTGAATATGATTTTATGCGGGATACTATGGTTAAGG
- - tactgtc
- - - - - - gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - -gagcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtacatg