Sequence
atgc intronic sequence ATGC exonic sequencegtattagtttcaggttttttcagcttcttttgctgctttgttttactcactctgagctgataaagacaacaaaatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G24580.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G09860.1 (Glycine max), 3'ss of exon 9
--------------------gtattagtttca---ggttttttcagcttcttttgctgctttgttttactcactctgagctgataaagacaacaaaatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
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acattagtttctttgagccaataccaagtcagaatggtccttttggtattgctaaactgttagtgtgtttcatatgaatctaataaatattataaaat-----agGTGCTAACATAGAAGGAATCTTGCGACAAGCAGCTGATGTTGATGAGGTTGAACGTCGAGTTCGGGAATATGAACAAG
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G09780.1 (Glycine max), 3'ss of exon 6
------------------gtattagtttcaggttttttcag--cttcttttgctgctttgttttac---tcactctgagctgataaagacaacaaaatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
| | | | || || | ||||| | |||| ||| | | | || ||||| | | |||| ||||| || ||||||||||||||| ||||||| |||||||||||||| ||||||| ||| |||| |||||||| |||
atatacattagtttctttgagtcaataccaagtcagaatggtccttctggtattgctaaactttgtgttttatatgaatctaataaatattatgaaat-----agGAGCCAACATAGAAGGAATCTTGCGACAAGCAGCTGATGTTGATGAGGTTGAACGTCGAGTTCGGGAATATGAACAAG
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 7
-------gtattagtttcaggttttttcagcttcttttgctgct-ttgttttactcactc---tgagctgataaagacaacaa-------aatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
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tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggttgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgctgctttgttttactcactctgagctgataaagacaacaaaatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
tttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattagtttcaggttttttcagcttcttttgctgctttgttttactcactctgagctgataaagacaacaaaatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT