Sequence
atgc intronic sequence ATGC exonic sequencegtagtccatatagctatcatattttgcataattatgtacatattcttctagactctagcatggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34750.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34750.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os06g47350.2 (Oryza sativa), 3'ss of exon 10
------------gtagtccatatagctatcatattttgcataattatgtacatat-tcttctagactctagcatggtcgacatgaaatgtc-----tcggtttatactcactttctatatc-----------atctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
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gttaagattaaccttttttttgtgttaactagattcactataattttgtgagtgcaccatgtgctattcagcattatatatttattccatcgctctctgcttcgttcttgttatctgattcttctgctgtaaatttgcagTTTATCATGTTTTATGCCTGCTCACTGGATCCTGAAATCTGTGGCCTTGAATTCGCTCTCTTCCTCTCTGATATCTTTATTAAAAAGGAAGAGGATTCAA
upper sequence: AT2G34750.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA09G32870.2 (Glycine max), 3'ss of exon 12
gtagtccatatagctatcatattttgcataatta-tgtacatattcttctagactctagcatggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
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-------------gtactgtttccctaatcattactgtttctattatgtttcttgctggtactgtttctgtgaaatgtgtt--ctcattagtggtgtttattttgt-tgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
upper sequence: AT2G34750.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0044g01700.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------------------------------------gtagt-ccatatagctatcatattttgcataattatgtacatattcttctag-----actctag----catggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
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gtacatcttcccctaatacacatttcctttctatttctttggtttctcatatttttgtgatattaagtgggatgtttgtttcctgacattaggtatggattttttctctgcctgctttaaaactcatattggttgatcatttcttcaccttaaactttcttgacttatttattgcagTTTGTGATGTTCTATGCCTGTGCTCTCGACCCTGAAAATTGTGGTGTGAGATTTGCTAGGGTGCTTGCAGATTTTTTTGTTTGCAGTACTTTTCCACCGCMapped 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|164181042|gb|ES068806.1|ES068806EST: AGTCATTTG-AAACTTCATTCTGAACACATACAAATCAAAATTCACCCAG TTTCTGATATTCTATGCCTGC
genomic: AGTCATTTGAAAACTTCATTCTGAACACATACAAATCAAAATTCACCCAGgtagtccata ... tcatctgcagTTTCTGATATTCTATGCCTGC
EST:
gi|164073097|gb|ES056428.1|ES056428EST: AGTCATTTGAAAACTTCATTCTGAACACATACAAATCAAAATTCACCCAG TTTCTGATATTCTATGCCTGCTCACTGGATCC
genomic: AGTCATTTGAAAACTTCATTCTGAACACATACAAATCAAAATTCACCCAGgtagtccata ... tcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcatggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
tactcac putative branch site (score: 1)
tttctatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtccatatagctatcatattttgcataattatgtacatattcttctagactctagcatggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT