Sequence
atgc intronic sequence ATGC exonic sequence...aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtgcattattttatttgaatgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
Basic information
species | Glycine max |
transcript | GLYMA18G11480.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G36210.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------------------------------aattacttttgtcaaagttg---tcatgtgtgggttctat-----cactctaatggcttcatgaaacatacactt--ctatatgtgc-------attattttatttgaatgttt-------cagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
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gtatgttaaacttacgacatcccgatttttcaaaacttaatcaaaataattcctcagtttcagtcttgttcatcttaagatcatgttttcgtttcaagtatgtactttagctgtaacataaatattgcaatcagctatgcatggcacatcgatcatttttgttgacaatctgaatctacagGAGGACCTACTGCTGAATCACGTGGATCCTTAAATCTGAATATCCAATACTGGACAAGTCGAGGTTGGGCATTTGTTGATGTCAATTATGGTGGAAGCAC
upper sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0001g11140.t01 (Vitis vinifera), 3'ss of exon 11
-aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtgcattattttatttgaatgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
|| | | | | || | | | | | | || ||| | || || | || | || | | ||| || |||| || || || ||||| |||||||||||||||||||| | ||||| |||||||||||||||||||| | || ||||| |||||||||||||| ||
aaagatccatgattagctttatacattctctgaaatgaaaaggtag-aatttcttctaatattgaattgggatagcatatgtgatgtgtgaaatattgcagGAGGGCCTACAAGTGAAACACGTGGAATTTTAAATTTGAGTATCCAGTATTGGACTAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC
upper sequence: GLYMA18G11480.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0001g11150.t01 (Vitis vinifera), 3'ss of exon 11
aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtg-cattattt-tatttga-atgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
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--taatcatgatagatgattttctctataccttctcttaaatgaacagtaaattattctataca-ttgaacttgtaatggtatacatgtgtgatatactgcagGAGGGCCGACCGATGAAGCGCACCAAAGCTTAAATTTGAGTATCCAGTACTGGACAAGTCGAGGTTGGGCATTTGTGGATGTGAATTATGGTGGAAGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcttcatgaaacatacacttctatatgtgcattattttatttgaatgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
attattttatttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattacttttgtcaaagttgtcatgtgtgggttctatcactctaatggcttcatgaaacatacacttctatatgtgcattattttatttgaatgtttcagGTGGACCAACTCAAGAAACTCGTGGAATTTTAAATTTGAGCGTTCAGTACTGGACTAGTCGAGGTTGGGCCGTCGTTGATGTTAATTATGGTGGAAGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - gtgtggg
- - - - - - - - - - - - - - - - - - -cactcta
- - - - - - - - - - - - - - - - - - - - - - -tggcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - catacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatta