Sequence
atgc intronic sequence ATGC exonic sequencegtaatttgtttctctgttattgacatctgcagtgctttatatgaaataggtttgttaaaagtaaacttgttttattttcttttcaattttggactttgtattacttattcgctgttaccttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
Basic information
species | Glycine max |
transcript | GLYMA01G06730.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os10g30750.1 (Oryza sativa), 3'ss of exon 6
gtaatttgtttctctgttattgacatctgcagtgctttatatgaaataggtttgttaaaagtaaacttgttttattttcttttcaattttggactt-tgtattacttattcgctgttaccttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
| || || || |||| | | | | | | ||| || | || || |||| | || ||||| ||||| || ||||||||||| | |||||||| ||||| || | ||||| ||||| || ||||| || |||||||||||||| || || ||
-----------------------------------------------------------------gtgattaagcttaaaccaaaaatttgtattggtttttcatgcatttactaattactaata-ataaccattctccagATTGCTCCCACTATATTTCCCTCGGGACAGGCAAGAGGAAGAGATTGCGGTATCAAAACTTCCAGCCGATGTTGGGGATGAGAATGGTGAAACAGTAATT
upper sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatttgtttctctgttattgacatctgcagtgctttatatgaaataggtttgttaaaagtaaacttgttttattttcttttcaattttggactttgtattacttattcgctgttaccttttatataatttcc---atgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
| ||| || | | | | | || ||||| | | || || | | | | || | || | | | | |||||| || |||||||| ||||| ||||| ||| |||| ||||| ||| | || | |||||||| || || ||||| |||||||| ||||||||||| || |||
------------------------------------------catgtagaaatgctggcaatgtatataccataacttcttat-atttgaggggtgcagaagcaatgccgaccattgctaaaaatttgactctctaaatgtagATTACTTCCACTTTACTTTCCTCGAGATGAACATGAGGAAGAGGTTGCCATATCAAAGCTCCCGGCTGATGTTGGAGATGAAAATGGTGAGACGGTTATA
upper sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
-------------gtaatttgtttc--tctgttattgacatctgcagtgctttatatgaaa-----taggt---ttgtt--------aaaagtaaacttgttttattttcttttcaattttggactttgtattactta--ttcgctg---ttacc---ttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
| ||||| | |||||| ||| | | |||| | | |||| ||||| | | | | ||||||| ||| |||| || | ||| | | | || | || ||| | |||| | || | ||| || ||||||||||| || || |||||||||||||| || |||||| |||| |||||||||||||||||||||| || |||||||||||||| || |||||
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatg-attttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttggactttgtattacttattcgctgttaccttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
tttccat CT-rich tract
ttaccttttatataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttgtttctctgttattgacatctgcagtgctttatatgaaataggtttgttaaaagtaaacttgttttattttcttttcaattttggactttgtattacttattcgctgttaccttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG