Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatcatattttgggttgtaaagaggacttttcattggtgaagaatatgtgactgaagcttctattctttccattgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25840.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G151236_T03 (Zea mays), 3'ss of exon 8
-------------------------------------------gtaagta-tcatattttgggt-------tgtaaagaggacttttcattggtgaaga-atatgtgactgaagcttctattct-ttccattgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
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gtgagttctttcatcctgcaatgtttttagattttctttcttacttagtactcatatgttgtctgtatatatatatatatatatatatatatatatatatatatatatatgtgacaactaacatgttttcttgcagTTCTTGGGTTAGCCTATGATCATCCTTTAGACATGTGGTCAGTTGGCTGCTGTCTATATGAGCTTTATACCGGTAAAGTCTTATTTCCTGGTCCATCAAA
upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA01G20810.1 (Glycine max), 3'ss of exon 11
--------------------gtaagtatcatatttt-gggttgtaaaga--------ggacttttcattggtgaagaatatgtgactg--aagcttctattctttccattgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
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gtaagttactttgcagtacagtaattg-catattcccaagtcctaaccatttttcttgtcattttgaatatttaatgggtttttactgttgggctttcaaacttttctatgcagTACTTGGCTTACCCTATGATCATCCGTTGGATATGTGGTCTGTAGGATGTTGTTTGTATGAACTCTATACAGGGAAAGTTCTTTTTCCAGGTTTTACTAA
upper sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 9
-------------------------------------------------gtaagtatcatattttgggttgtaaa--gaggacttttcattggtgaagaatat-------gtgactgaagcttctattctttccat-tgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
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gtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAAMapped 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|124954695|gb|EL029771.1|EL029771EST: CGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTA TTCTGGGGCTCCACCTATGACCATCCGTTGGATATATGGT
genomic: CGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatca ... tccattgcagTTCTGGGGCTC-ACCTATGACCATCCGTTGGATATATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggacttttcattggtgaagaatatgtgactgaagcttctattctttccattgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
cttctattctttccat CT-rich tract
aagaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatcatattttgggttgtaaagaggacttttcattggtgaagaatatgtgactgaagcttctattctttccattgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA