Sequence
atgc intronic sequence ATGC exonic sequence...tgtaaaaactatagaacaaaattgagaatgaattacaaattgatcttttgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
Basic information
species | Glycine max |
transcript | GLYMA10G36620.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 3'ss of exon 5
tgtaaaaac--tatagaacaaaattgagaatgaattacaaattgatcttttgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
| | | | | | ||| | | | ||| || | || ||| | | || ||| || | | | || | || ||| | ||||| | |||| ||||| || || ||||||||||| || ||||| || || || ||||| |||||||| |||||||| || ||||| |||||||
tatcatagcagtgcagacctgatgttcccttgacttttacatattccttacatgagca--aactgggactaatgctttcttcttcactcacttaatttccagTTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAGTTCATATGCATTGGAAGATTCACAGCTGTCTCATTTCAAGTTCTAGGCC
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 3'ss of exon 5
tgtaaaaactatagaacaaaat-tgagaatgaattacaaattgatcttttgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
|| | | ||| | ||| || || | ||| | |||| | | | || || || | | | | || ||| || | ||||| | |||| |||| || || |||||||||||||| |||||||| || || || || ||||| || || ||||| |||||||| |||||||
tggaggatatattttttataatctgttgttgccatgaccattactatttttatcgtggcagggcctaacattttctttttttcatctacctgcattg-tagTTCTTCATCATACTGTCGTGCATAATTGCTGTTGGGACCAACCTTAGCCAATTCATATGCATCGGAAGATTTACAGCAGTCTCGTTCCAAGTTCTAGGCC
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 4
--tgtaaaaactatagaacaaaattgagaatgaattacaaattgatcttt-tgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
|| | || ||| || | | ||| ||| | ||| | || | | | | | | || | | |||| |||||||| |||||| || ||| | | ||||| ||||| || || ||||||||||||||||| || || || ||||| |||||||| |||||||| || |||||||| ||||
ggtgaatttcctctagttcactttattcctagcattgtgccttgctatttgtctttacaagaatgatctctcacttgcct---cgttgtcttggcttttgcagATATTTATAATCCTTTCATGTACTATCGCGGTAGGGACCAACCTCAGCCAGTTCATATGCATTGGTAGATTCACAGCTGTCTCCTTTCAAGTACTTGGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
aagtttcttatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaaaaactatagaacaaaattgagaatgaattacaaattgatcttttgttgatattgaccttgaccaagtttcttatattttgtgttggctttggcagATTTTCATATTTATGTCATGCACTATAGCAGTTGGGACCAACCTCAGCCAATTTATCTGTATTGGCAGATTCACTGCTGTCTCTTTCCAAGTACTAGGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- taaaaac
- - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgtg