Sequence
atgc intronic sequence ATGC exonic sequencegcaagatctcagctttttaattccttttcacacacatatgccattgaagcagcagagacatctatctggcagaaatgaaatagatcttgctttggtcatactactgagttagctttttcttttttgttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTCTCTAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G27950.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G27950.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G30060.1 (Glycine max), 3'ss of exon 9
-----------------------------------gcaagatctcagctttttaat-tccttttcacacacatatgccattgaagcagcagagaca----------------tctatctggcagaaatgaaatagatcttgctttggtcatac-----tactgagttagctttttcttttt-tgttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTCTCTAG
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gtatgaatctggtgttgatttctcatttttaatttatgtccttctagctgctagatgttatctgtacctgaaaaagctatttaa-cttcagagatgagtcccttttactgcttctagttttttgtactatcattgtttctttctagacaatcaaagtatatatagttagtgatttgttgctactttgcttgcagGAATAGCAAGCTGACTCAAATACTGAAAGATTCTCTTG
upper sequence: AT5G27950.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0030g01360.t01 (Vitis vinifera), 3'ss of exon 7
gcaagatctcagctttttaattccttttcacacacatatgccattgaagcagcagagacatctatctggcagaaatgaaatagatcttgctttggtc-atactactgagttagctttttctt-ttttgttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTCTCTAG
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----------------------------------------------------------------gtaagttcttacattctagttcccattgagatttgcacttctaatctggttgggttttgtttctttggttgcagAAATAGCAAGCTAACTCAAATTCTCAAGGATTCCCTTGMapped 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|163976457|gb|EL983913.1|EL983913EST: CGTTAAGGAGAAAGAAGGGACATGTGCCTTACAG AAACAGCAAGCTAACTCAAATTCTTAAAGATTC
genomic: CGTTAAGGAGAAAGAAGGGACATGTGCCTTACAGgcaagatctc ... ttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatcttgctttggtcatactactgagttagctttttcttttttgttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTCTCTAG
ctttttcttttttgtt CT-rich tract
tttttcttttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagatctcagctttttaattccttttcacacacatatgccattgaagcagcagagacatctatctggcagaaatgaaatagatcttgctttggtcatactactgagttagctttttcttttttgttgcttgcagAAACAGCAAGCTAACTCAAATTCTTAAAGATTCTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT