Sequence
atgc intronic sequence ATGC exonic sequence...ttggcaaggttcaaacaagcattaaagagttgtgatcaatctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtctattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 3
ttggcaaggttcaaacaagcattaaagagttg---tgatcaatctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtctattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
| | || || | || | ||| | | ||||| | | || || || || | | |||| | | || || | | |||||| |||||||| ||||| | || ||||| ||||||||||||||||||||||||| || ||||||| | | || | || | |
ctatttatgtgcagggtcataatatgtaattgattttaggaatcttgtgcctcttttttg-atgttccatgatttgattgtctaacattg--gtaaactgtagGGGACGCCATGCCTCAAAGATGACAGAAGAGGAGGAAGATGAAGAATACCTTAAAGAAGAGGAAGATGCCCTTGCTGGTTCAGGGGGAACACGCTTGCTT
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 3
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 3
----ttggcaaggttcaaacaagcattaaagagttgtgatcaatctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtctattt-tagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTG-ACTCAACCA
| || | |||| || ||| || ||| | || ||| | | || || || | || | | | | | ||| |||| |||||| |||||||||||||| | ||||||||||||||||||||||||||||| |||| ||||||||||| | | || | || | | |
ccataagacatagctcaatgaa--attcgag-gttcttttctgtct-acatctacgttaacttgttaagtaatttatttgttgatgagttga-gtccatttgtagGGGACGCCATGCATCAAAGATGACTGAAGAAGAGGAAGATGAAGAATACCTCAAAGAGGAAGAAGATGCCCTTGCTGGTGCAGGGGGAACACGTTTAGTT-
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 3
ttggcaaggttcaaacaagcattaaagagttgtgatcaa----tctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtc---tattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
| | | || || | | | || | || | || || |||||| | | | | | | || | || | || || |||||||||||||||||||||||||| |||||||| || ||||||||||| | ||| |||| |||||||||||| ||| | ||| || | |
-----taagcctggataaacacataggtagtttggtaaaaatattcaattct-accttg-gtttaatgatggctttctcctcctttattcccaatcacttaatttagGGGTCGCCATGCATCAAAAGTGACTGAAGAGGAAGAAGATGAAGAGTGCCTGAAAGAGGAAGAAGATGGTTTATCTGGGACAGGAAACACGCGGCTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgaccttgtgcattttaaaaaaacacattgcattaaatcactgtctattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
tctatttt CT-rich tract
attttaaaaaaacaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcaaggttcaaacaagcattaaagagttgtgatcaatctgatactgaccttgtgcattttaaaaaaacacattgcattaaatcactgtctattttagGGGTCGCCATGCATCAAAAGTAACTGAAGAAGAGGAAGATGAAGAATACCTTAAAGGGGAAGAAGATGGCTTAGCAAATACACGACTGGTGACTCAACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG