Sequence
atgc intronic sequence ATGC exonic sequence...ttccatggttcagaaaatactttcttgtgcatgcgtatctcttctcaaatacaatgtaacatcacatgtcatagttaaaatatcttttctctttttacagCGAGGTTGCCAAAGGCCTAATGAAATATCAGCCAGATATAATAATCAGTGTGCATCCACTGATGCAGCACGTTCCACTTCGAATTTTAAGGTCAAAGGGT
Basic information
species | Glycine max |
transcript | GLYMA14G12120.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G12120.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G31780.2 (Arabidopsis thaliana), 3'ss of exon 2
ttccatggttcagaaaatactttcttgtgcatgcgtatctcttctcaaatacaat-gtaacatcacatgtcatagtt--aaaatatcttttctctttttacagCGAGGTTGCCAAAGGCCTAATGAAATATCAGCCAGATATAATAATCAGTGTGCATCCACTGATGCAGCACGTTCCACTTCGAATTTTAAGGTCAAAGGGT
||| || | |||| ||| | | | |||||| | | | || | | | | | || | | | || ||| |||||| || | ||| |||| ||||||||||||| |||||||| ||||||||||| ||||| ||||||| || || |||||||| | |||| ||||| ||
---catatttagcctatagcttttttgggtctttgcttctcttacggagttctatcatgtctttttcttttctaatctgataccattgttttataacttacagGGAAATCGCCCAAGGGTTAATGAAATATCAACCAGATATCATAATCAGTGTTCATCCGTTGATGCAACATGTCCCACTTCGTGTCCTAAGATCAAAAGGC
upper sequence: GLYMA14G12120.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g06920.t01 (Vitis vinifera), 3'ss of exon 2
ttccatggttcagaaaatactttcttgtgcatgcgtatctcttctcaaata-----caatgtaacatcacatgtcatagtta---aaatatcttttctc---tttttacagCGAGGTTGCCAAAGGCCTAATGAAATATCAGCCAGATATAATAATCAGTGTGCATCCACTGATGCAGCACGTTCCACTTCGAATTTTAAGGTCAAAGGGT
|| | | ||| |||| | ||| |||||| || | | ||| | | | |||| | | |||| | || ||| ||||| |||||||||||||| || |||||||| || || || || || || || || ||||| |||||||| || |||||||| || ||||| ||| |||||||
-----------gttaactgcattcatgtgagaatagtatttttcccaaataacttccatttcatcattcttttttgttgttatctgattctcttatttccaatttctacagAGAGGTTGCCAAAGGACTTATGAAATACCAACCTGACATTATTATTAGCGTACATCCTCTGATGCAACATGTTCCACTCCGTATTTTGAGGGCAAAGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaatacaatgtaacatcacatgtcatagttaaaatatcttttctctttttacagCGAGGTTGCCAAAGGCCTAATGAAATATCAGCCAGATATAATAATCAGTGTGCATCCACTGATGCAGCACGTTCCACTTCGAATTTTAAGGTCAAAGGGT
atgtaac putative branch site (score: 3)
tatcttttctcttttt putative PPT
atagttaaaatatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccatggttcagaaaatactttcttgtgcatgcgtatctcttctcaaatacaatgtaacatcacatgtcatagttaaaatatcttttctctttttacagCGAGGTTGCCAAAGGCCTAATGAAATATCAGCCAGATATAATAATCAGTGTGCATCCACTGATGCAGCACGTTCCACTTCGAATTTTAAGGTCAAAGGGT
- ccatggt
- - - - - - gaaaatac
- - - - - - - - - - - - - - gcatgcg
- - - - - - - - - - - - - - - - - - - - - - - - - -caatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgtc