Sequence
atgc intronic sequence ATGC exonic sequence...gaatagagcattttttctggtgtgattgttgtattatatatgctttagggatttagacttggttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
Basic information
species | Glycine max |
transcript | GLYMA09G39270.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 14
------------------------------------------------------------gaatagagcattttttc---tggtgtgattgttgtatt---atatatgctttagggatttagacttggtta-accaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
||| ||| |||| ||| | | | ||| | | ||||||| || | | | | | | || | | | || ||| |||||| ||||| || || ||||| |||||||||||||||||||||||| | || || |||||
gtacggtaaactcttctagagacgttaaatactataaagtccagtatttattgcttgcatgaacagacaatttcttcatctattaagtttgataaacctagttatatgcaacagagggtcatcaatacctgcaagaactattgctgaaaatggctttgctattacagGTCATTGCGAAGCTGGAAGGCCCTGCTGTCAGTCAGTACTGTGCACTCCGTTTGCTACAA
upper sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 15
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 15
-----gaatagagcattttttctggtgtgattgttgtattatatatgctttagggatttagacttggttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
| | | | | ||| || | | || || | | || | |||| | ||| ||||| | || | ||||| ||||||||||| ||||| |||||| ||||||||||||||||||||| ||||| || | |||
tcttgggacaaaaaaagcgca-tggagttactattatagaacac-tgaagaaatctattaggttatgtt--tcaaatcgta-cactaagtatagaaatggtgcagGTGATTGCAAAACTAGAAGGTGTTGCTGTCAGTCAGTACTGTGCTTTACGGCTATTGCAG
upper sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 15
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 15
------gaatagagcattttttctggtgtgattgttgtattatatatgctttagggatttagacttggttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
| | | | | ||| || | | || || | | || | |||| | ||| ||||| | || | ||||| ||||||||||||||||| |||||| ||||||||||||||||||||||||||| || | |||
ctctcgggacaaaaaagcgca--tggagttactattatagaacac-tgaagaaatctattaggttatgtt--tcaaatcgta-cactaagtatagaaatggtgcagGTGATTGCCAAACTAGAAGGTGTTGCTGTCAGTCAGTACTGTGCATTACGGCTATTGCAG
upper sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 15
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 15
--gaatagagcattttttctggtgtgattgttgtattatatatgctttagggatttagacttg-gttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
| ||| | || | || | || | | | ||| | || | || ||| | | ||| || || ||| || ||| ||||||||||| |||||||| || ||||| || |||||||| ||||| ||||| ||| |||||
ttgcttagggagttccaaataaaatgtatattat---acaaatgaccaacctatattgaattgtaatgcatatattctttctgttccatgtgtaatgccgcagGTGATTGCTAAACTTGAGGGCCCTGCCGTGAGTCAGTATTGTGCTTTACGTTTATTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagggatttagacttggttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
aaatttaatcaatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatagagcattttttctggtgtgattgttgtattatatatgctttagggatttagacttggttaaccaaatttaatcaatttcatctgaaatataacagGTGATTGCCAAACTTGAAGGTCCTGCTGTCAGTCAGTACTGTGCATTACGATTACTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - -tggtgtg
- - - - - - - - - - - - - tgttgta
- - - - - - - - - - - - - - - - - - tatatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccaaa