Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcatttgttctccattgtgtttgtgtcacttgttgttgaagtttgtatctgcttgaatatggtctgggtgctgctttagcctgatctctagtatggccaatttctccacaatttataaagagagtttgaatgattgtatatgtacttcaccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G47450.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G47450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G01500.2 (Glycine max), 3'ss of exon 7
gtaagtcatttgttctccattgtgtttgtgtcacttgttgttgaagtttgtatctgcttgaatatggtctgggtgctgctttagcctgatctctagtatggccaatttctccacaatttataaagagagtttgaatgattgtatatgtacttcaccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAA
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---------------------------------tgttttccttaattatctcttgttttgactatcatttaggcaattc-----caagttttcaggtatgcct--tttctccatcttgact--------ttttaatatttgt---tgt-----------cagAAACAATGGCTATAAATGATCCAGTGGCTGCATCTGCACAAAGATACAAACCAATACAATCTGCAGTTCCTGGAACTACCTTAGGGCCAATTCAAATTAA
upper sequence: AT3G47450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv16s0022g00320.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtcatttgttctccattgtgtttgtgtcacttgttgttgaagtttgtatctgcttgaatatggtctgggtgctgctttagcctgatctctagtatggccaatttctccacaatttataaagagagtttgaatgattgtatatgtacttcaccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAA
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---------------------------gtcctacttcttgccatctttttactgttattgattatggtttcacttctgaattgg----attttt------------tttcctac---------------tttggtttactata---attctgtgatat-cagAGATGATGGCCCAAAGGGATCCAGCTGCTGCAGCAGCACAAAGATACAAGCCGATACAATCTGCTGTTCCTGGAACTACCTTAGGTCCAATTCAAATTGAMapped 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|86059158|gb|DR354915.1|DR354915EST: GGTGCAGCTAACGTAGGGAAGTCAGCATTCATCAATGCTTTGCTGA AAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAAC
genomic: GGTGCAGCTAACGTAGGGAAGTCAGCATTCATCAATGCTTTGCTGAgtaagtcatt ... caccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccacaatttataaagagagtttgaatgattgtatatgtacttcaccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAA
cttcacc CT-rich tract
acaatttataaaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcatttgttctccattgtgtttgtgtcacttgttgttgaagtttgtatctgcttgaatatggtctgggtgctgctttagcctgatctctagtatggccaatttctccacaatttataaagagagtttgaatgattgtatatgtacttcaccatacagAAACGATGGCCGAAAGGGATCCTGTTGCAGCAGCGGCACAAAAGTACAAACCAATTCAATCTGCTGTCCCTGGAACCACCTTGGGTCCAATTCAGATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA