Sequence
atgc intronic sequence ATGC exonic sequence...cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
Basic information
species | Glycine max |
transcript | GLYMA15G10870.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 2
cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
| ||| || ||| || || ||||| | | | | | | || || | | | || | ||| | |||||||||||| | ||||||||||| ||||||||| || |||| || | ||| ||||| ||||| |||||||| ||| | || | ||| |||
-gtgagtctacttaac-atcttctcaccctccttaaaatcatgtatatagaccattttaatagccattctcaatggaataatttcatggaaaa--tgcagGTCATGTGTCTATACATTACAGGGCATCTTGACACTGTATTCCCTGGAGAATATCGTAAAGAAATTCTTCGCTACCTATACTGTCATCAG
upper sequence: GLYMA15G10870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0054g01480.t01 (Vitis vinifera), 3'ss of exon 3
cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
| ||| | | || || || ||||| | || | | ||| || || | | | || | ||| | |||||||||||| | ||||||||||| ||||||||| ||||||| || | ||| |||| ||||| |||||||| ||| | || | ||| |||
-gtgagtctactcaac-accctctcaccctccttaaaatcatgtatatggaccattttaacagccattctcaatggaataatttcatggaaaa--tgcagGTCATGTGTCTATACATTACAGGGCATCTTGACACTATATTCCCTGGAGAATATCATAAAGAAATTCTTCGCTACCTATACTGTCATCAG
upper sequence: GLYMA15G10870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 2
cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
| ||| | | || || || ||||| | | | | ||| || || | | | || | ||| | ||||||||||| | ||||||||||| ||||||||| || |||| || | ||| ||||| ||||| |||||||| ||| | || | ||| |||
-gtgagtctactcaac-accctctcaccctccttaaaatcatgtatatagaccattttaacagccattctcaatggcataatttcatggaaaa--tgtagGTCATGTGTCTATACATTACAGGGCATCTTGACACTGTATTCCCTGGAGAATATCGTAAAGAAATTCTTCGCTACCTATACTGTCATCAG
upper sequence: GLYMA15G10870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 3'ss of exon 2
cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
| ||| | | || || || ||||| | || | | ||| || || | | | || | ||| | |||||||||||| | ||||||||||| ||||||||| || |||| || | ||| ||||| ||||| |||||||| ||| | || | ||| |||
-gtgagtctactcaac-accctctcaccctccttaaaatcatgtatatggaccattttaacagccattctcaatggaataatttcatggaaaa--tgcagGTCATGTGTCTATACATTACAGGGCATCTTGACACTGTATTCCCTGGAGAATATCGTAAAGAAATTCTTCGCTACCTATACTGTCATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
tacttac putative branch site (score: 1)
acactatttaacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttagacatacatatttatcccaacatattctctaaaagttgaagtttgtaatgctaacacactatttaacattatttttacttacttaaaatactccagGTCATGTGTATGTACATTACAGGACATCTTGACTCTATATTTCCAGAAGAGTATCGCAAAGAGATTCTTCGTTACATTTATTTTCACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - catacat
- - - - - - - - - -cccaaca
- - - - - - - - - - - - - - - - - - - - - - - - gtaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aacacac