Sequence
atgc intronic sequence ATGC exonic sequenceGCTAACAGAGGGCTTGGACTCTCTGCCCATATTATCGATCACTGTAATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGGgtatgtttacacttgtctggtttctttttgagatttcattggttttattgtgatcaagttttttacacttgcattcttatctttcaatgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08660.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08660.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G27570.2 (Glycine max), 5'ss of exon 3
GCTAACAGAGGGCTTGGACTCTCTGCCCATATTATCGATCACTGTAATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGGgtatgtttacacttg---tctggtttct------ttttgagatttcattggtttt-attgtgatcaagtt-----ttttacacttgcattcttatctttcaatgacag---
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GATAACAGGGGGCTTGGACTCACTGCACATATTATTGATCATTGCAAGTTAATTCTTAAATACCCTGAAGGTACCAACAGCACTTGGgtatgtctctttctgccttctgaatcctgagtagtcttgaatttgattcaatttccattaataaccaattgctgattttttgtttacttttcaatgtttggataattgcag
upper sequence: AT1G08660.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0068g01150.t01 (Vitis vinifera), 5'ss of exon 3
GCTAACAGAGGGCTTGGACTCTCTGCCCATATTATCGATCACTGTAATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGGgtatgtttacacttgtctggtttctttttgagatttcattggttttattgtgatcaagttttttacacttgcattcttatctttcaatgacag
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GCAAACAGAGGGTTTGGAATTACTGCACATATTATTGACCACTGCAAATTGATTCTCAAGTTCCCTGAAGGCACTAACAGTACCTGGgtctgcctcttagcccaagaccttattttatgcactcatttagttttatgttaaaatgctgatt-tgctttttcttttctgtttccttcacagMapped 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|125050603|gb|EL122872.1|EL122872EST: ATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGG TACAATGCACAATTTAAAGTTTTTGAAGCATTGGAGTTCAAGTATAATGTT
genomic: ATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGGgtatgtttac ... tcaatgacagTACAATGCACAATTTAAAGTTTTTGAAGCATTGGAGTTCAAGTATAATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTAACAGAGGGCTTGGACTCTCTGCCCATATTATCGATCACTGTAATCTTATCCTCAAGTTCCCTGAAGGCACTAACAGTACTTGGgtatgtttacacttgtctggtttctttttgagatttcattggttttattgtgatcaagttttttacacttgcattcttatctttcaatgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG