Sequence
atgc intronic sequence ATGC exonic sequencegtattctccttgcattgatcttatcattgaaaaatatcattttttcagtatagaatgtttctcatgctagtattttgttgtatgcagGGTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
Basic information
species | Glycine max |
transcript | GLYMA02G46780.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g39640.1 (Oryza sativa), 3'ss of exon 2
--------gtattctccttgcattgatctta--tcattgaaaaatatc--attttttcagtatagaatgtttctcatgctagtattttgttgtatgcagG-GTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
|| | | |||||| || ||| || | | || || | | || | || |||| || | || | |||||| | | |||||||| ||||| ||||| || |||| ||||| || |||||||| |||||||||||||| |||||||||||||||||||| || ||||||
tgccagtggtgtattgtggacattgagtgtaattcagtggcataaattggatccctccttattattttcttcctcacactggaatacttctgtatgaaagTGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAATGTTTGGTGAAGCAGGTGTCAGTGCAGCAACAGGCGTCATGACT
upper sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G13070.1 (Arabidopsis thaliana), 3'ss of exon 2
------gtattctccttgcattgatcttatcattgaaaaatatcattttttcagtatagaatgtttctcatgctagtatttt--gttgtatgcagGGTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
|| || |||| | ||| | || || | || | | || | | ||| ||| || ||| || |||| || || || ||||||| ||||||||| || ||||||||||||||||| ||||| ||||| ||||||||||| ||||| || || ||| |||||||
gtaattgttttttcctagatatgaa-tcgtctttagaggat--------tgctataaatattgtctcttatcttaggtcttgtggttggtcttagTGTTGTGAATATTGCGGCAACTGCACTGGTCACTGAAGCAGCAACAGCTATATTTGGGGAAGCTGGTGTTAGTGCTGCCACTGGATTGATGACA
upper sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G55930.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatt--ctccttgcattgatcttatcattgaaaaatatcattttt--tcagtatagaatgtttctcatgctagtattttg--ttgtatgcagGGTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
||| | | || ||| | | ||| | | || || | ||| ||| | | || |||| || | || || || ||||||| ||| ||||| | |||||| |||| ||||| ||||| ||||||||||||||||| |||||||| ||||||||||||||
gtaatggttttttctattagttagaatgttgttttttttaatgttcgcttgaatcgttttgtctcttaactttgttctttggatttttcttagTGTTGTTAATATTGCGGCGACTGCCTTGGTCACTAAAGCGGCAACAGCTATTTTTGGTGAAGCTGGTGTTAGTGCAGCCACAGGAGTGATGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatcattttttcagtatagaatgtttctcatgctagtattttgttgtatgcagGGTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
ttttgtt CT-rich tract
attttttcagtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctccttgcattgatcttatcattgaaaaatatcattttttcagtatagaatgtttctcatgctagtattttgttgtatgcagGGTGGTCAATATTGGGGCAACTGCTCTTGTCACTGAAGCAGCAACTGCTATGTTTGGTGAAGCTGGTGTCAGTGCAGCAACAGGAGTGATGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG