Sequence
atgc intronic sequence ATGC exonic sequence...tggtcatactgttgactgacaagcacaatacaagttttgtattatttattctcttctcagatgtgtattataacattcatttgcacaatgtctggtgcagGATTTGCATAATCAAAATATCACTCCAAATATATACGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACATTAAATCTATATCAAA
Basic information
species | Glycine max |
transcript | GLYMA03G33410.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33410.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G02830.1 (Arabidopsis thaliana), 3'ss of exon 3
---------tggtcatactgttgactgac--aagcacaatacaagttttgtattatttattctcttctcagatgtgtattataacattcatttgcacaatgtctggtgcagGATTTGCATAATCAAAATATCACTCCAAATATATACGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACATTAAATCTATATCAAA
| | ||||||| | | ||| | | | | | | || | | || | || || | || || || ||| || ||| | || ||||||| | | || |||| || | |||||||| || || | |||||||| |||||||| ||||||||||||||| | |||||| |||| |||| | |
gtaattccctaattatactgtatttttgcgtaagtatcctttacgctcgattttgtctgccatcctg-catttgagatttgtag--ttaatt--cataat-tttgtggcagGATCTTCTCAAAGAAAACATTAAGCCAAATATTTATGTTATTAACAGTCTAATGAATGTTAATTCCCATGATCTTGGGTACACACTAAAAGTATACAAGA
upper sequence: GLYMA03G33410.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g03240.t01 (Vitis vinifera), 3'ss of exon 3
tggtcatactgttgactgacaagcacaatacaagttttgtattatttattctcttctcagatgtgtattataacattcatttgc-acaatg---tctggtgcagGATTTGCATAATCAAAATATCACTCCAAATATATACGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACATTAAATCTATATCAAA
|||| | || | || | || ||| | |||| | | | || | | ||| ||| ||| | ||| | ||||| || | | ||| || ||||| |||||||| ||||| |||||||||||||||||||||||| ||||||| | || |||||||| ||| | || | |
---caatacacaaaatgtgtaattttgtgttattttgcaaaataattaga-tgttctatgcttccttttcttaggttcgtttcttacagttgatcctgctacagGAGTTACTTGCTCAGAAGATCACCCCAAATATTTACGTTTTCAACAGTCTCATGAATGTGAATGTCCATGATTTGAGTTACACATTCAATGTCTACAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattctcttctcagatgtgtattataacattcatttgcacaatgtctggtgcagGATTTGCATAATCAAAATATCACTCCAAATATATACGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACATTAAATCTATATCAAA
ttataac putative branch site (score: 2)
tattataacattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtcatactgttgactgacaagcacaatacaagttttgtattatttattctcttctcagatgtgtattataacattcatttgcacaatgtctggtgcagGATTTGCATAATCAAAATATCACTCCAAATATATACGTGTTCAACAGTCTCATGAATGTGAATTCCCATGATCTTAGCTACACATTAAATCTATATCAAA
- - - - -tgttgac
- - - - - - - - - -caagcac
- - - - - - - - - - - - - aatacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcacaa