Sequence
atgc intronic sequence ATGC exonic sequencegtaagcattgatagtactgaagctagcatgtgccgaatcttttgaatcagaattgtggtctcttactttgggatattgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G19170.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA17G06740.1 (Glycine max), 3'ss of exon 8
--------------gtaagcattgatagtactgaagctagcatgtgccgaatcttttgaat--cagaattgtggtctcttactttgggata-ttgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
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agaataattgcttgattaaggacgcgagggaggaaggtagaagaaaacttactaatatatttacataattgattcattttaagctattttgcttgtgcagGTGAAGCGTTTGCCATGATATCTGGAACCAGCATGGCTGCACCACATATAGCTGGAATTGCTGCTCTTATAAAGCAGAAGCATCCTCATTGGAGCCCTGC
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 8
------------------gtaagcattgatagtactgaagctagcatgtgccga-atcttttgaatcagaattgtggtctcttactttgggatattgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
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gaataattgcatgattaaggagggagggacaaaggtagaagaaaaacttactgatatgttatatagttgattcattttaagcagttttttgct--tgtgcagGTGAGGGGTTTGCCATGATATCTGGAACTAGCATGGCTGCACCACATATAGCTGGAATTGCTGCTCTCATAAAGCAGAAGCATCCTCATTGGAGCCCTGC
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 9
------gtaagcattgatagtactgaagctagc---atgtgccgaatcttttgaatcagaattgtggtctctta-----ctttgggatatt---gagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
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gaatttgaaaaccatgccagcaggataacatgctatagttactgtacttttaacatgctaatgaatgccttttaaacatctttgttttttcttcgagcagGAGAAGGGTTTGCAATGATCTCTGGAACTAGCATGGCTGCACCACATATAGCTGGAATAGCTGCCCTTGTAAAGCAGAAACACCCTCATTGGAGCCCTGCMapped 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|47829262|gb|CK118946.1|CK118946EST: ATGAACCCAATTATGTTG GTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAG
genomic: ATGAACCCAATTATGTTGgtaagcattg ... tattgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgccgaatcttttgaatcagaattgtggtctcttactttgggatattgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
ctcttac putative branch site (score: 3)
aatctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcattgatagtactgaagctagcatgtgccgaatcttttgaatcagaattgtggtctcttactttgggatattgagcagGTGAAGGATTTGCGCTAATATCAGGAACCAGCATGGCTGCACCACACATAGCCGGGATAGCTGCGCTTGTGAAGCAGAAGCATCCTCAATGGAGCCCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC