Sequence
atgc intronic sequence ATGC exonic sequence...tcatttcaacaactataagatttgattttctctctctctctctgtgtttttcttttactttacaaaatatcacgtcatgatagtatatattattatgcagGCCTTAGACGGTGTGGCAAGAGTTGCCGTCTACGGTGGCTCAATTATCTGAGGCCAGACATCAAACATGGAGGCTTTACTGAAGAAGAGGACAACATCAT
Basic information
species | Glycine max |
transcript | GLYMA17G35020.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G35020.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0008g00620.t01 (Vitis vinifera), 3'ss of exon 1
tcatttcaacaactataagatttgattttctctctctctctctgtgtttttcttttactttacaaaatatcacgtcatgatagtatatattattat-gcagGCCTTAGACGGTGTGGCAAGAGTTGCCGTCTACGGTGGCTCAATTATCTGAGGCCAGACATCAAACATGGAGGCTTTACTGAAGAAGAGGACAACATCAT
|| ||||| || | | || | ||| || | | | | | ||| | | | | | | || || | ||||||| || || || |||||||||||| | | |||||||||| ||||| |||||||||||||||||||| || |||||||| || || ||||| ||||
ccaaacaaacaaaaggaaaactggaagaagggtttct-tccataactcgaattaaagcccaatttcttattattcaagtaaaatttgatttcttgttacagGCCTGAGGCGTTGCGGCAAGAGTTGCAGATTGAGGTGGCTCAACTATCTCAGGCCAGACATCAAACATGGTGGTTTTACTGAGGAGGAAGACAAAGTCAT
upper sequence: GLYMA17G35020.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g02780.t01 (Vitis vinifera), 3'ss of exon 1
tcatttcaacaactataagatttgattttctctctctct--ctctgtgtttttcttttactttacaaaatatcacgtcatgatagtatatattattatg-cagGCCTTAGACGGTGTGGCAAGAGTTGCCGTCTACGGTGGCTCAATTATCTGAGGCCAGACATCAAACATGGAGGCTTTACTGAAGAAGAGGACAACATCAT
||| | ||| | ||| | || ||| |||| |||| ||| || || | | || ||| | | | | | |||| |||| || || |||||||||||| | | | |||||||||||||| || ||||||||||| ||||||||||||||||| || || |||||||| ||
---ttttcaaaaccccatttcttgttccccttaacttctggttctgaaaacagtttttctgttaaaatatttgaagttctgagctttccttctgatgtttcagGGCTTAAGCGCTGCGGCAAGAGTTGCAGGTTGAGATGGCTCAATTATCTCAGACCAGACATCAAGCATGGAGGCTTTACTGAGGACGAAGACAACATTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttcttttactttacaaaatatcacgtcatgatagtatatattattatgcagGCCTTAGACGGTGTGGCAAGAGTTGCCGTCTACGGTGGCTCAATTATCTGAGGCCAGACATCAAACATGGAGGCTTTACTGAAGAAGAGGACAACATCAT
tcatgatagtatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatttcaacaactataagatttgattttctctctctctctctgtgtttttcttttactttacaaaatatcacgtcatgatagtatatattattatgcagGCCTTAGACGGTGTGGCAAGAGTTGCCGTCTACGGTGGCTCAATTATCTGAGGCCAGACATCAAACATGGAGGCTTTACTGAAGAAGAGGACAACATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - caacaac
- - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtcatga