Sequence
atgc intronic sequence ATGC exonic sequence...ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgtgtgatgttttctgattacatttgattcttcatgtagACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
Basic information
species | Glycine max |
transcript | GLYMA07G26900.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G26900.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G14790.1 (Arabidopsis thaliana), 3'ss of exon 2
ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgtgtgatgttttctgattacatttgattcttcatg--tagACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
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gtaaacatttttctatgct--tgattcgtgttt---ttttcgagcttttattgttttaagtctcgaacttttcattggaatcttgtgttcttttgtgcatagGCCACACCCAAATGAATGTTCTGGGAGTGATTTAGATGGAGATATTTACTTTGTATGTTGGGATCAAGAATTGGTTCCGCCAAGAACGTCTGAACCAATG
upper sequence: GLYMA07G26900.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0011g05880.t01 (Vitis vinifera), 3'ss of exon 4
ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgt-gtgatgttttctgattacatttgattcttcatgt-agACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
| |||| | | || ||| | | | | | | ||| |||| |||| | ||||| |||| | ||| | | | | ||||| || || || |||||||| || ||||| || |||||||||||||||||||| ||||||| | |||||| ||||| ||||| || |||||||||
-tgctgctttgtcttagttaatcttctgctgttgattatagttatttgtac-ttttctttatgccaagttgtttactgacaattgctgaattataagatcagACCTCACCCAAACGAATGTTCGGGGAGTGATTTGGATGGAGATATCTACTTTGTTTGTTGGGATCGTGATCTAATTCCACCTCAACAAATCAATCCCATG
upper sequence: GLYMA07G26900.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0011g05870.t01 (Vitis vinifera), 3'ss of exon 2
ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgt-gtgatgttttctgattacatttgattcttcatgt-agACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
| ||||| | || |||||| | | | | | | ||| |||| |||| | ||||| |||| | ||| | | || | ||||| || || |||||||||| || ||||| || |||||||||||||||||||| ||||||| | |||||| ||||| |||| || |||||||||
-tgcttctttgtctcagtcaatcttctaccattgattatagctatttgtac-ttttctttatgccaagctgtttactgacaattgctgaattatgatattagACCCCACCCGGATGAATGTTCGGGGAGTGATTTGGATGGAGATATCTACTTTGTTTGTTGGGATCATGATCTAATTCCACCTCGACAAATCAATCCCATG
upper sequence: GLYMA07G26900.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S178_112V6.1 (Physcomitrella patens), 3'ss of exon 4
ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgtgtgatgtttt-ctgattacatttgattcttcatgtagACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
|| |||||| | | | || | | || || | ||| || || |||| || ||| | || ||||||||||| ||||| || ||||||||||| |||||||| || | || || || || ||||| || || ||||| | || || | || |||
gtataggtttcttgcatgtcttggttcttgtctccatgttgcctttgtctctagacggctatttgctgcgtaaagctgaaagtggtt-attgaacttgcagACCACATCCAAATGAGTGCTCAGGAAGTGATTTAGATGGTGACCTATATTTCGTGAGCTGGGATGAGGACCTGATTCCACTCAATACTGATGAACCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttacatttttaatatgtgtgatgttttctgattacatttgattcttcatgtagACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
ttcttcat CT-rich tract
atttttaatatgtgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaagtctttctttcggtcaatataccatggcaaagcgatggaagagttacatttttaatatgtgtgatgttttctgattacatttgattcttcatgtagACCACATCCTAATGAATGTTCAGGAAGTGACTTAGATGGAGATATCTACTTTGTCAGTTGGGACCCTGATCTTATTCCTCCTCATCAGGAAAATCCCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - catggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga