Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttcctatcagtaaattgccttgttttcagcttttcatagcattcggatattaaatggtgttttctgctgtttgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G11800.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 10
-------------------------------------------gtaagtttcctatcagtaaattgccttgttttcagc------ttttcatagcattcggatattaaatggtgttttctgctgtt-tgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
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ggtatgtagaatgtcaattaattgcttattatagttctccttctcttacttgtaagcacaaaatcgctttttttaaaaaaaaatattttactagcacgttatggttgtaacatatttttaaatttgatgcaGATTGCATTGGGAAATATCCTAAAATTTCGGAAAAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTATTAGTCTTTTCAATGTTTCCA-
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 10
-----------------------------------------gtaagtttcctatcagtaaattgccttgttttcagcttttca-tagcattcggatattaaatggtgttttctgctgtt-tgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
|| | || ||||| || | || | ||| | ||||| ||| | |||| | | |||||||||| ||||||||||| || ||||| ||||| |||||||||||||||||||| |||||||| |||||||| ||| | | |||||||| |||| || |
gtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacat---tatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 11
------------------------gtaagtttcctatcagtaaa--ttgccttgttttcagcttttcatagcattcggat------attaaatggtgttttctgctgtt--tgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
| | || | | ||| || | || | | ||||| | | || || || | ||||||| || | || |||||||||| ||||||||||||||||| ||||| || ||||| ||||| ||||||||||||||||| |||||||| ||| | ||||| ||||| |||| || |
gtaaatctgaaaatctacagttccattggcttgtcaataccaaaaatttcattttatattcctttttttttccttttaatttctcaataatatggtgtattggtcatttgatgcagATTGCATTGGGAAATATTTTGAAGTTCCGAAAGAAGAATTGGCAGTTTGATTTCATTGGTGGCATTATATATTTTGTATTGGTTTTTTCTATGTTTCCACMapped 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|116416375|gb|EG458967.1|EG458967EST: CCTCTTATGGAAGCAAGGTTGCCTACCCCTCTTTTGATGATTCAAGTAAA ATTGCTTTGGGAAATATATTGAAATTCCAGAAAAAGAACTGGCAATTTGAT
genomic: CCTCTTATGGAAGCAAGGTTGCCTACCCCTCTTTTGATGATTCAAGTAAAgtaagtttcc ... ctgtttgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttcagcttttcatagcattcggatattaaatggtgttttctgctgtttgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
ttttctgct CT-rich tract
atattaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttcctatcagtaaattgccttgttttcagcttttcatagcattcggatattaaatggtgttttctgctgtttgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG