Sequence
atgc intronic sequence ATGC exonic sequence...ctaatccaggagcacaatgatgtttatttagtggttggcattttggatcttattcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
Basic information
species | Glycine max |
transcript | GLYMA18G27710.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------------------------------------ctaatccaggagcacaatgatgtttatttagt-ggtt--ggcattttggatctta---ttcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
| ||| |||| || || ||||| |||| ||| | || | || ||| | | || | |||| | || ||| ||||||||| ||||||||||| ||| | | ||||| |||||||| ||||||| ||| | |||||||| || ||||||||||
gtaagaagaagatattaatttccttatcatgcttttcttttatggtatttgtaatgtttactggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttccttcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------------------------------------------------------------ctaatccaggagcacaatgatgtttatttagt-ggttggcattttggatcttat-----tcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
| ||| |||| || || ||||| |||| ||| | || |||| | || | | || | |||| | || ||| ||||||||| ||||||||||| ||| | | ||||| |||||||| ||||||| ||| | |||||||| || ||||||||||
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtctattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG
upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------------------------------------------------------------ctaatccaggagcacaatgatgtttatttagt-ggttggcattttggatcttat-----tcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
| ||| |||| || || ||||| |||| ||| | || |||| | || | | || | |||| | || ||| ||||||||| ||||||||||| ||| | | ||||| |||||||| ||||||| ||| | |||||||| || ||||||||||
gtaagaagatattaatttccttatcatgattttctttcgtggtatttgtaatgtttattggtcatcgtggtatttgtaatgtttattggtcattgttatcatttagcattatcatatttatgtagtcagttccagtgttcattcttttggatttcctggttagtactgaagtagaaagagtgaaaccttttatctttcagGTACATTGACATGGCAGAATCCTTGTGCCAGAAGCGTGCTTTGGAAGCATTTCGGTTGGATCCTGCAAAATGGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcttattcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
tctttccttttc CT-rich tract
aaattcgaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaatccaggagcacaatgatgtttatttagtggttggcattttggatcttattcttcacagaatccaaattcgaaaaattgtggatctttccttttcagGTATATTGACATGGCTGAAACACTATGCCAAAAGCGTGCCCTGGAAGCGTTTAGATTGGATCCCGCTAAATGGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - -tgatgtt
- - - - - - - - - - - - - - - -tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaat