Sequence
atgc intronic sequence ATGC exonic sequence...tataaacaataaaatgaaagactaagacttaaggttacttatttaaaaatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT
Basic information
species | Glycine max |
transcript | GLYMA16G08260.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G08260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G135909_T01 (Zea mays), 3'ss of exon 2
tataaacaataaaatgaaagactaagacttaaggttactt-atttaaaaatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT
| || | || ||| || | | | | |||| | |||| ||| ||| | ||||| | ||||| || | ||||||||| ||||||||||| | ||||| ||||| ||||| ||||| | |||||||| ||||||| || |||| | |
----------------gtaagctggatttcaactttatttcagccttggttattacctgaaagaattataggtttataccttttgctgt----cttaatagGTCAGAGCTCTACAAAGGTTGGGCAGCAGGTTTGAAAATTTATCTGGTCATGAGAGATCCTGCATACTATCTGGTCAGCATAGAACAGGAAATTGCAACT
upper sequence: GLYMA16G08260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0087g00420.t01 (Vitis vinifera), 3'ss of exon 2
tataaacaataaaatgaaagactaagacttaaggttacttatttaaa---aatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT
| | | || ||| | | || | || | | |||| ||| | | || ||| | | | || | |||| | ||||||||||||||||| | | ||||| || ||||| || || ||||||||||| ||||| || |||| || ||||||||||||| |||| ||||||||
---atcttacagaagacaagtttctcattttaaaccctttctctggttttgatgtaatcatgtaaccgattcaaattagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT
tcctcac putative branch site (score: 2)
aaatttttcctttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataaacaataaaatgaaagactaagacttaaggttacttatttaaaaatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT
- - - -aataaaa
- - - - - - - -gaaagac
- - - - - - - - - - - - - - - - - - - - - - - - - - cctcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtaa