Sequence
atgc intronic sequence ATGC exonic sequencegttagttttaaaccataagtgctacacagttagaattatttttctaaagttgaaaatagtaaccatcatcctcttcgtaattgcagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52150.3 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 6
gttagttttaaaccataagtgctacacagttagaattatttttctaaa---gttgaaaatag------taaccat---catcctcttcgtaattg-----cagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
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gtaaagtaaaaa----aaattgtgcatggatgaagacttttatctcaatggattggaaccagatcacttatttgtatgcttacttgttgcctttgatgatcagCTATATGCACCAACCACATTGGCTCCTGCTCGAGACTTCTGGTTGTTGCGCTACACTTCTGTTTTAGAAGATGGCAGCTTAGTG
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 6
gttagttttaaaccataagtgctacacagttagaattatttttctaaagttgaaaatagtaacca--tcatcctcttcgtaattgc-----------agCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
|| | || ||| ||||| | | |||| || | || | ||| | | || | | ||| | |||| |||| ||||||||||| |||||||| || | || || |||||| |||| || ||||| ||||||||||||||||| ||||| |||
gtaaattaaaaaattatagtgcaatgatgaagactttatcttaatgaattggaaccaaatcacttatttgtatgcttacttgttgcctttgatgatcagCTATATGCACCAACCACATTGGCTCCTGCTCGAGACTTCTGGTTGTTGCGCTACACTTCTGTTTTAGAAGATGGAAGCCTAGTG
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 7
gttagttttaaaccataagtgct-acacagttagaattatttttctaaagttgaaaatagtaacc-at-------catcctcttcgtaattg-----cagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
|| | | ||| |||||| | | |||| || | || | ||| | | || || | | || | | |||| ||||| ||||||||||| |||||||| || | || || |||||| |||| || ||||| ||||||||||||||||| ||||| |||
gtaaagtaaaaaattatagtgcttggatgaagacttttatcttaatgaattggaaccaaatcacttatttgtatgcttacttgttgccattgatgatcagCTATATGCACCAACCACATTGGCTCCTGCTCGTGACTTCTGGTTGTTGCGCTACACTTCTGTTTTAGAAGATGGAAGCCTAGTG
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 6
gttagttttaaaccataagtgctacacagttagaattatttttctaaagttgaaaatagtaaccatcatc----------ctcttcgtaattg-----cagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
|| | | ||| ||||| | | ||| || | | | | | || ||| | || | | | ||| ||||| ||||||||||| |||||||| || | || || |||||| |||| || ||||| ||||||||||||||| ||||| | |||
gtaaagtaaaaaattatagtgc-atggatgaagacttttaccttaatggataggaaccaaaacacttatttgtatgcttacatgttgcctttgatgatcagCTATATGCACCAACCACATTGGCTCCCGCTCGAGACTTCTGGTTGTTGCGCTACACTTCTGTTTTAGAAGATAGCAGCTTAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaattatttttctaaagttgaaaatagtaaccatcatcctcttcgtaattgcagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
tagtaac putative branch site (score: 1)
tcctcttcgt putative PPT
tatttttctaaagttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttttaaaccataagtgctacacagttagaattatttttctaaagttgaaaatagtaaccatcatcctcttcgtaattgcagCTCTATGCACCAACTACATTGGCCCCACCACGCGATTTCTGGCTGTTACGTTACACCTCTGTTTTAGAAGATGGCAGCCTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG