Sequence
atgc intronic sequence ATGC exonic sequence...agactgttacctatacattaattgtcgttatgtgaatagttaaagaatcaaacgagttataccgtactaatgaacctttgtttttattttcatgactcagATTTGGGGTATGGGAAGCTGCAAAATGGGTTGCACGAGTTCGTGATCTCTCAATTTACGACCCAAAGCGGCCAATATTGCTGAACTTGACCACAGATTTA
Basic information
species | Glycine max |
transcript | GLYMA16G26000.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26000.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G66960.1 (Arabidopsis thaliana), 3'ss of exon 10
agactgttacctatacattaattgtcgttatgtgaatagttaaagaatcaaacgagttataccgtactaatgaacctttgtttttattttcatgactcagATTTGGGGTATGGGAAGCTGCAAAATGGGTTGCACGAGTTCGTGATCTCTCAATTTACGACCCAAAGCGGCCAATATTGCTGAACTTGACCACAGATTTA
||| || ||| | | || || | | | ||| ||| | || ||| | ||| | ||| | | ||||||| || ||||||||||| |||||||||||| |||| ||||| | | | ||||| | || || | || || |||||||| || || |
----------gtatgtatccattcttctaatttggcgactctatcaat-gtttgagattta--agactgagatttcttctctcgcattgtta-------gATTTGGTGTTTGGGAAGCTGCGAAATGGGTTGCAAGAGTCCGTGACAATACCTTCAATGACCCTGAACGACCGGTCTTACTCAACTTGACGACTGACATT
upper sequence: GLYMA16G26000.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0255g00060.t01 (Vitis vinifera), 3'ss of exon 10
---agactgttacctat-acattaattgtcgttatgtgaatagttaaagaatcaaacgagttataccgtactaatgaacctttgtttttattttcatgactcagATTTGGGGTATGGGAAGCTGCAAAATGGGTTGCACGAGTTCGTGATCTCTCAATTTACGACCCAAAGCGGCCAATATTGCTGAACTTGACCACAGATTTA
| | || | || || | | || | || ||||| || |||| || | || | | | | | ||| | | ||| | | |||||||||| || ||||||||||||||||||| |||||| || || || | |||| ||||||||||| ||| ||||||| || || || |||||| ||
ttaatttttgtattcaccactttgtactccatagtgagtattgttaaccaagcaaa-aaggtgtaa-gaggtgtttaccatttttctatatgatgtt--ttcagATTTGGAGTCTGGGAAGCTGCAAAATGGGCTGCACGCGTGCGGGAATGTGCTGTTTATGACCCAAAGCGTCCAGTATTGCTTAATTTAACAACAGATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcaaacgagttataccgtactaatgaacctttgtttttattttcatgactcagATTTGGGGTATGGGAAGCTGCAAAATGGGTTGCACGAGTTCGTGATCTCTCAATTTACGACCCAAAGCGGCCAATATTGCTGAACTTGACCACAGATTTA
tactaat putative branch site (score: 1)
cctttgtttttatttt putative PPT
tttgtttttattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agactgttacctatacattaattgtcgttatgtgaatagttaaagaatcaaacgagttataccgtactaatgaacctttgtttttattttcatgactcagATTTGGGGTATGGGAAGCTGCAAAATGGGTTGCACGAGTTCGTGATCTCTCAATTTACGACCCAAAGCGGCCAATATTGCTGAACTTGACCACAGATTTA
- - tgttacc
- - - - - - - - - - - - - - - - - - - - - - gaatcaaa