Sequence
atgc intronic sequence ATGC exonic sequence...tctgatggcactcttttgcagagcttattctaatctcccgtttggttttgtcttgctttaaatttttaatgatttatttaatctttaattttcttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
Basic information
species | Glycine max |
transcript | GLYMA03G21690.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------tctgatggcactcttttgcagagcttattctaatctcccgtttggttttgtcttgctttaaatttttaatgatttatttaatctttaattttc-----ttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
| | | || |||| || | | || | | |||| | || || | ||| ||| || || || | |||| ||||||||||| || |||||||| ||||||||||| ||| |||| ||||||||| | |||||||| ||||| |||| ||||| ||||| ||||
gtactcatcccccgatcacccatttctcaactgtatcaattctttttgcttttttttttttcttttcttcttttcttttttactatgctgc-aattattggattgattttgagtttttgttgattttcagTTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG
upper sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0260g00070.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------tctgatggcactcttttgcagagcttattctaatctcccgtttggttttgtcttgctttaaatttttaatgatttatttaatctttaattttcttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
| | || |||| || |||| ||| | || |||| |||| || | || || || || | | ||| || ||||||||||| || |||||||| ||||||||||| ||| |||| ||||||||| | |||||||| ||||| |||| ||||| ||||| ||||
gtactcatcccccgatcacccatttctcaactgtatcaattcttttttctttttttttttcttttcttcttttcttttttactatgctgcaattattggattgatt-ttgagtttttg--ttgattttcagTTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG
upper sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ21868 (Selaginella moellendorffii), 3'ss of exon 1
tctgatggcactcttttgcagagcttattctaatctcccgtttggttttgtcttgctttaaatttttaatgatttatttaatctttaattttcttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
| || | || | ||| || | | |||| | | || || |||||||||| ||||| ||| | || ||||| | ||||||||||| |||||||||||||| |||||||| |||| |||||| ||||
----------------------------------gtagcgctc--ttctctctcgccctggcgtcgcaatg--ctgatagattcttg----------cagTTCACTACACTGGAACGCTTCTGGATGGATCCAAGTTTGATTCGAGCAGAGATAGGGGCGATCCTTTCACATTCAAGCTTGGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtcttgctttaaatttttaatgatttatttaatctttaattttcttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
tctttaattttctttt CT-rich tract
tttaaatttttaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgatggcactcttttgcagagcttattctaatctcccgtttggttttgtcttgctttaaatttttaatgatttatttaatctttaattttcttttcagTTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAG
- tgatggc
- - - - - - -ttttgca
- - - - - - - - - - - - - - - - - ctcccgt