Sequence
atgc intronic sequence ATGC exonic sequence...gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G26935.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G27160.1 (Glycine max), 3'ss of exon 1
gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattt-tcgcgttt-----tattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
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---------------------------------------gtacagtttctatcc--atttatgactatgagggtgcttattcattgcttttatcattttcttgcagAAATTTTTTCTTCAAGGAAGGTTCATATTTGGACCAGATGTGAGATCACTGGCGCTGACAATTATTCTTATTGTTGCTCCTGTTGCAGTTTTCTGTGTCT
upper sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 1
---------gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
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ttagtggctgatgctgcaactttatttgaaatgtgctgctgttctggtggttatgttactgt-gaaaatgcatattca-------ttgttttcatccatt-tcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
upper sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 1
------gctggtg-tattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
|||| || | ||| | || | | || || | |||||| | | | || | ||||| | || | |||||| ||| ||||||||||| ||||| ||||||| ||||||| |||||| |||| ||||| |||| ||| ||||||| |||||| || ||||||| |||
ttagtggctgatgctgcaaatttatttgaaatgtgctattgttctagtg-gttttgttactgtgaaaatacttattca-----ctgttttcacccatt-tcctgcagAAATTTTTTCTTCAGGGCAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACAATTTTTCTTATTGCTGCTCCTGTTGCAGTTTTCTGTGTCT
upper sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G05670.1 (Glycine max), 3'ss of exon 1
gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattt-tcgcgtt-----ttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
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---agacaaatgttaat-tgcattgttatttgaaatatgttacagtttctatcc--atttatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT
upper sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 1
gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgtt-ttattt---tgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
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--ttagacatttaaggtttgaat--tcattatgtggaaatgataatgagtgttttttatttccatgctcgggacgtcaccatctgtttcattacttgtctgcagATATTTTTTCTTCAGGGGAGGCTTATATTTGGACCCGATGTTAGATCTCTGGGGCTGACCATATTCCTTATTGTTGCTCCTGTTACGGTTTTCTGTGTCTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|125020882|gb|EL093151.1|EL093151EST: TCCAATGGTGATTTAAGGGTTTACCAAACTTGGAAAGGCAGCAAT ATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTG
genomic: TCCAATGGTGATTTAAGGGTTTACCAAACTTGGAAAGGCAGCAATgtgagttttt ... tattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
ttttatttt CT-rich tract
ttttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
- - - - - - - - - - - - - - - gtttttg