Sequence
atgc intronic sequence ATGC exonic sequence...tctgggcaatggggtacgaagtttttttactttcttgttataaatttgcttttaggaattttcctatgagaatcttcaatatatttgagtgtttttgcagATTTGCAGCAGCATTGATTGATCAGAATCTTGACAGCTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAACACCTTGCCTGTTATATATGACCGTGGG
Basic information
species | Glycine max |
transcript | GLYMA11G34430.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G34430.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g62800.1 (Oryza sativa), 3'ss of exon 6
tctgggcaatggggtacgaagtttttttactttcttgttataaatttgcttttaggaattttcctatgagaatcttcaatatatttg---agtgtttttgcagATTTGCAGCAGCATTGATTGATCAGAATCTTGACAGCTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAACACCTTGCCTGTTATATATGACCGTGGG
| ||| | | || || | ||| |||| || | | | | | | | ||| | | ||| | | ||| ||||| |||||||| ||||||||| ||| || ||||| ||||||| |||||||| ||||||||||||| |||||||| ||||||| || |||||||| ||
ttctcacaaagacaaaataaattggacttattttctgtttggtgcgtgatat---attctgttttgcgcaatatctcattttgcttgctaattttttatgcagGTTTGCAGCTGCATTGATTAATCGTAAACTTGATTGCTGGGTGATGAATGTTGTTCCTGTTAGTGAGCCAAACACACTGCCTGTAATCTATGACCGGGGA
upper sequence: GLYMA11G34430.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G39750.1 (Arabidopsis thaliana), 3'ss of exon 6
tctgggcaatggggtacgaagtttttttactttcttgttataaatttgcttttaggaattttcctatgagaatcttcaatatatttgagtgtttttgcagATTTGCAGCAGCATTGATTGATCAGAATCTTGACAGCTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAACACCTTGCCTGTTATATATGACCGTGGG
||| ||| | | | || |||||| ||| | ||| || || | |||||| | | | ||| ||||||||||||| ||| | | |||||| || || || |||||||| | | ||||||||||| ||||| || ||||| |||||||| || |||||||||||
-------------gtatgaaataat---atttctttgttaggtatta---tacaggtatcttagcttatctctcttcatttattcctttggctttggcagATTTGCAGCTGCACTAAATGATCATAAACTCGATTGCTGGGTTCTAAGCGTGGTTCCTGTCAGTGGGCCTAACACATTGCCTGTCATTTATGACCGTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcttttaggaattttcctatgagaatcttcaatatatttgagtgtttttgcagATTTGCAGCAGCATTGATTGATCAGAATCTTGACAGCTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAACACCTTGCCTGTTATATATGACCGTGGG
tgttttt CT-rich tract
aatcttcaatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgggcaatggggtacgaagtttttttactttcttgttataaatttgcttttaggaattttcctatgagaatcttcaatatatttgagtgtttttgcagATTTGCAGCAGCATTGATTGATCAGAATCTTGACAGCTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAACACCTTGCCTGTTATATATGACCGTGGG
- - ggcaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctatga