Sequence
atgc intronic sequence ATGC exonic sequence...tacttcttaatcagtttttcactagacgtgtaaccaaacacactctattatatgatttgaatggtggatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA
Basic information
species | Glycine max |
transcript | GLYMA07G08340.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0048g02000.t01 (Vitis vinifera), 3'ss of exon 2
tacttcttaatcagtttttcactagacgtgtaaccaaacacactctattatatgatttgaatggtg-gatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA---------------------
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----gtatgatctgatgttccataaaagtttta----gcctatttcttcgccaggttcgtgtgttatgaccgaatgttttctggttgcttttg--ttttagTCTGTTCAAGGAGTGTCCTCATCCTGATGAAAAGCAAAGGTTGGAACTCAGCAGAAGGCTTAGCTTGGAGACCAGGCAAGTGAAGTTCTGGTTCCAAAAT
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37532 (Selaginella moellendorffii), 3'ss of exon 1
tacttcttaatcagtttttcactagacgtgtaaccaaacacactctattatatgatttgaatggtggatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA---------------------
| | | | || | ||||| || | ||| || || |||||||||||||||||||||||||| || || ||||| | | || ||||| | ||| | |||| |||| |||
------------------------------------------gtaagtactgcaagccgagagcatgatgagaacttatc--tttcttcgtg----ccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ34024 (Selaginella moellendorffii), 3'ss of exon 1
tacttcttaatcagtttttcactagacgtgtaaccaaacacactctattatatgatttgaatggtggatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA---------------------
| | || | || | ||||| || | ||| || || |||||||||||||||||||||||||| || || ||||| | | || ||||| | ||| | |||| |||| |||
------------------------------------------gtaagtactacaagccgagagcatgatgagaacttatc--tttcttcgtg----ccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatatgatttgaatggtggatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA
atgatgtttttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacttcttaatcagtttttcactagacgtgtaaccaaacacactctattatatgatttgaatggtggatgatgtttttttaattttttgatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - cactcta
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgga