Sequence
atgc intronic sequence ATGC exonic sequencegtaagataatgcatataggctttcttaggggaaagaaattaggtatatgcaaatgcaaatgctcttctaatttattgaatttgactttttggctacatgctccagTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
Basic information
species | Glycine max |
transcript | GLYMA17G12900.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12900.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g42260.2 (Oryza sativa), 3'ss of exon 2
gtaagataatgcatataggctttcttagggga---aagaaattaggtatatgcaaatgcaaatgctcttctaatttattgaatttg---actttttggctacatgctcc----agTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
||| | | | | | | | | | | | || || | | ||| || || | | | | || | | ||||| || | || | | || || ||||| ||| ||||||||||||||||||||||||| || || ||||| || | || || ||| ||||| |||||| |||| ||
gtatgtatttcccagcaagttgagtgaagctatttgtgtcatgagttttgctacaattttttaccttttgttagtaaaggatgtcgcgaactttctgaactcttgtttcttgcagCGATTGATGCTCCTGGTGGTTTTCTTTTTGAGTGGTGGTCAGTTTTTTGGGATATTTTCATAGCAAGGACAAATGAGAAGCATTCAGATGTTGCGGCTTC
upper sequence: GLYMA17G12900.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g08190.2 (Oryza sativa), 3'ss of exon 2
gtaagataatgcatataggctttcttaggggaaagaaattaggtatatgcaaatgcaaatgctcttctaatttattgaatttgactttttggctacatgctccagTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
| |||||| | | ||| | | | | | | |||| | | || | |||| || | | || | ||||| | || || || ||||| || | ||||| || || |||||||||||||||||||||||||| | ||||| ||| | || |||||| | ||| |||
-ctgatttatgcatgccag-tctctgatgtttctgcattgtaatgaatgcgattttaa-tcttcttgta-ctgaaagatgtcagcttttgttttgcaaaaaa-agCAATTGATGCCCCAGGGGGTTTCCTCTTGGAGTGGTGGTCTGTCTTCTGGGACATCTTCATTGCAAGGACGAACGAGAAGCACTCTGATGTTGCTGCTTC
upper sequence: GLYMA17G12900.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g04550.t01 (Vitis vinifera), 3'ss of exon 2
gtaagataatgcatataggctttcttaggggaaagaaattaggtatatgcaaatgcaaatgctcttctaattt-attgaatttgactttttggctacat---gctccagTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
| || | |||| || ||| | || ||| | || | |||||| |||||| | |||| |||| |||| ||| || || || | ||| || ||||||||| |||| ||||| ||||| ||||||||||| || ||||| |||| ||| || ||| ||||| |||| | | || | |||
gcaaaagaatgtatcgaggaatcatt-----aaattttcatgagatgtccaaatga----gctcttatcatttgattggtattgattttatgtctgaattgaatttcagCCATCGATGCACCTGGTGGCTTTCTCTTTGAATGGTGGTCTGTTTTTTGGGATATATTTATAGCTAGGACAAATGAGAAACACTCGGAGGCTGCTGCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgcaaatgctcttctaatttattgaatttgactttttggctacatgctccagTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
taatttattgaatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataatgcatataggctttcttaggggaaagaaattaggtatatgcaaatgcaaatgctcttctaatttattgaatttgactttttggctacatgctccagTTATAGATGCACCTAGTGGTTTTCTTTTTGAGTGGTGGTCTGTCTTCTGGGACATATATATTGCCAGGGCAAATCAGAAGCTCCAAGATACAGCTCAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA