Sequence
atgc intronic sequence ATGC exonic sequencegtaagctttgtgaatcagtattcttgagtgtgatcgaatatgtgttgttagtttctaaaagtgaatttgttttgctgaatatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
Basic information
species | Glycine max |
transcript | GLYMA14G08070.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G75220.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------gtaagctttg-tgaatcagtattcttgagtgtgatcgaatatgt-gttgttagtttctaaaagtgaatttg-ttttgctgaa-tatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
| | |||| | | || | || | | | | | | || | | ||| | | | ||| ||| | | || | |||||||||||||| |||||||| |||||||||||||| || ||||| || ||||| ||||||||||||||| | |||||||| |||||||| |||
gtaagccttacagtagtttgcttattcttcttgagtttagtgcatattttggttactccactcttttttttttttttaataacatcattaatcatctctgatgggatacttgatttcgttaaaatgtagGCAAAAATGGGTATGACAGATGAATTTGAAACTTCATTACAAGTTCTTCGAGGATTTGAGACTGATATTACCGTTGAAGTTAATGAAATCAAG
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G19450.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagctttgtgaatcagtattcttgagtgtgatcgaatatgt---gttgttagtttctaaaagtgaatttgttttgctgaatatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
||| || | | | | ||||| | | | | | || | ||| || || ||| || | |||| | | | | | |||||||| ||||| ||||||| || || |||||||| |||||||| || || || ||||||||||||||| | ||||| || |||||||| |||
gtatgcctc-tacaaccgtattgctta-tattgttgagtttgttgcattattggttatcctaaattgttttggtgttgtaattgtagGCAAAGATGGGTTTGACAGATGATTTCGAAACTTCATTGCAAGTTCTTCGTGGATTTGAGACTGATATTACCGTTGAGGTTAATGAAATCAAG
upper sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 8
gtaagctttgtgaatca-gtattcttgagtgtgatcgaata-tgtgttgttagtttctaaaagtgaatttgttttgctgaatatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
|||||||| || | | |||| | || | | | | | ||| || | | ||| | | | | ||| | | ||||||| ||||| ||||||||||| |||||| |||| |||||||| || || || ||||| ||||||||| || |||||||||||||||| |||
gtaagcttcatgtggtatattttctctattgataggggtcagtatattgatacagtttttgagtcattctttcttg----aaacagGCAAAGATGGGTATGACAGAAGATTTTGAAGCTTCTTTGCAAGTTCTTCGGGGGTTTGATACTGATATTACTTTTGAAGTGAATGAAATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatcgaatatgtgttgttagtttctaaaagtgaatttgttttgctgaatatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
ttctaaa putative branch site (score: 2)
ttttgct putative PPT
aatttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctttgtgaatcagtattcttgagtgtgatcgaatatgtgttgttagtttctaaaagtgaatttgttttgctgaatatagGCAAAAATGGGAATGACAGAAGAATTTGAAACTTCCTTGCAAGTGCTCCGAGGCTTTGAGACTGATATTTCTGTTGAAGTGAATGAAATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG