Sequence
atgc intronic sequence ATGC exonic sequencegttatgtgtttgattgccaaattgtgaacacagcaattcccactgaatggatatcccttctaaagtttaaaagtttgtgcagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
Basic information
species | Glycine max |
transcript | GLYMA18G47050.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 6
----------gttatgtgtttgattgccaaattgtgaacacagcaattcccactgaa-tggatatcccttctaaagtttaaaagtttgtgcagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
| || | | || || ||| | || | || | |||| | || || | || | ||| || || ||||||||||||||| |||||| |||||||||||||| |||||||||||| ||||||| | ||||| || ||||||||| | ||||| |||| |||||||
gttgagtatcatcatatccgttatc-cccttttgctcattcatcgtatcactttgaaataaatttcttatatatattttc----ttggtccagGTTTCTTATATTAGCCAAAATTGGCCTGTTCAACACGTGGCAGCTAGCGAGGATGGGAAATACTTGGCGGTTGCTGGTTTACATGGCCTGATTTTGTATG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 6
----------gttatgtgtttgattgccaaattgtgaacacagcaattcccactgaatggatatcccttctaaagtttaaaagtttgtgcagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
| || | | || || ||| | || | || | | | | || ||| || | || || || ||||||||||||||| |||||| |||||||||||||| |||||||||||| ||||||| | ||||| || |||||||| | ||||| |||| |||||||
gttgagtatcatcatatccgttatc-cccttttgctcattcatcgtatcacttttgaaataaatttcttatatatgttttc--ttggtccagGTTTCTTATATTAGCCAAAATTGGCCTGTTCAACACGTGGCAGCTAGCGAGGATGGGAAATACTTGGCGTTTGCTGGTTTACATGGCCTGATTTTGTATG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 6
gttatgtgtttga-ttgccaaattgtgaacacagc------aattcccactgaatggatatcccttctaaagtttaaaagtttgtgc-agGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
|||| |||||| | || | ||| || | | | | | | || || ||| || |||| |||| || ||||||||||||| |||||||| ||||||||||||||||||| |||||| ||||||| ||||||||||| ||||||||||| ||||| || || || || |
gttacgtgtttaaattatgtacttgataattcgttgtttttagtctctattttattaatgctcctaatatagttctc---tttgggctagGTTTCTTATATCTCCCAAAATTGGCCTGTTCAACATGTGGTGGCTAGCAAGGATGGGATGTACTTAGCAGTTGCTGGTCTCCATGGCTTAATCTTATACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acacagcaattcccactgaatggatatcccttctaaagtttaaaagtttgtgcagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
ttctaaa putative branch site (score: 2)
taaagtttaaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatgtgtttgattgccaaattgtgaacacagcaattcccactgaatggatatcccttctaaagtttaaaagtttgtgcagGTTTCTTATATTTCCCAAAACTGGCCTGTTCAACATGTGGCAGCTAGCCAGGATGGCATGTACTTAGCTGTTGCTGGTCTTCATGGTTTGATATTGTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT