Sequence
atgc intronic sequence ATGC exonic sequencegtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G47560.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 7
gtaattccttttctgctaattattattctttggattatcttgttattagacagt-tcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
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-----cttcactttacaaatcattgtgtttctcgtcat-tagttatttaaaattattttaacatgtttttatgaagt---ggttcatac-taataatct--gtgcctggcagGTGTTGCAAGGGCTTGAAGCAGCATCAAATTGCGTGGAAGACATGGATGAATGGTTAGGCATGTTCAATGTAAAGCTTCGACACATGAGGGAAGATATTG
upper sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
gtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
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------tcatgtatgttaacaagtgacaatagtg----cgtattatttatgaagtcctctaaagtg-gcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
upper sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ12163 (Selaginella moellendorffii), 3'ss of exon 7
gtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
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-------------------------------------------------gtaaatcttcaaagaacaatat-agtgctggctgtgtttacaacaatcgttatatggtatagGTTCTTAGACGTTTGAATAATGCGTCAGAAGCGGTCGAAGACATGGATGAATGGCTAGGAATATTTAACGTCAAGCTTAGGCACATGCGGGAAGACATCG
upper sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ29370 (Selaginella moellendorffii), 3'ss of exon 7
gtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
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-------------------------------------------------gtaaattttcaaagaacaatat-agtgttggctgtgtttacaacaatcgttatatggtatagGTTCTTAGACGTTTGAATAATGCGTCAGAAGCGGTCGAAGACATGGATGAATGGCTAGGAATATTTAACGTCAAGCTTAGGCACATGCGGGAAGACATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
tcttcatgcttttc CT-rich tract
ttaaattttgttgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA