Sequence
atgc intronic sequence ATGC exonic sequencegtaattaggtttcctctgtaaacttaaattcctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
Basic information
species | Glycine max |
transcript | GLYMA05G33320.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os04g32960.1 (Oryza sativa), 3'ss of exon 11
------------------gtaattaggtttcctctgtaaacttaaattcctccatgttgtcaatttttttcttaataaaatatattttttaatttt-cagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
| | | | |||| | | | | | || || | | |||| || || || || | | ||| ||||||||| | | || ||||| ||||||||||| ||||| |||||||||||||| || | | |||| |||| || | || ||||||||||| |
tttcatccattaggattaatgttgggctctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os02g32350.1 (Oryza sativa), 3'ss of exon 11
gtaattaggtttcctctgtaaacttaaattcctccatgttgtcaatttttttcttaataaaatatattttttaatttt-cagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
|| | || | || | ||| || |||| | || | | |||| ||| | | ||| | ||||| ||||| || | ||||| |||||||| || ||||| ||||||||||||||||| | ||||| ||||| | || || || |||||||| || |
----gtatgactcttgtgcat-ctttggttaatccacctccatggcttcgatgtc--taaataataccatgtgattctacagATAGAGGTTGAAGCAGTTGATAGAACTGGGACATTCTTAGGTTCCTTATGGGAGTCCAAAACCAACATGGCTTCTGTTCTTCTGGAGGCTGGTCTGGCCA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
gtaattaggtttcctctgtaaact--taaattcctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
| ||| | | |||||| ||| | || || | || | ||| || |||| | |||| ||| | | |||||||| || || |||||||| |||||||||||||||||||| || |||||||| ||| ||||| |||||| | ||||| || || ||||| || ||||
---gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaa-tctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
ttttaat putative branch site (score: 3)
tatttttt CT-rich tract
ttgtcaatttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattaggtttcctctgtaaacttaaattcctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG