Sequence
atgc intronic sequence ATGC exonic sequence...tcttcttcagttattcctttttgtttcttagccaggtaatgctctttttttaatttaccgagagtaaagcaactgaaatacctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G23590.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G23590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G10970.1 (Glycine max), 3'ss of exon 8
tcttcttcagttattcctttttgtttctt--agccaggta------atgctcttttttt--aatttaccgagag-taaagcaactgaaat-ac-ctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
|| |||||| |||| | ||||||||| |||||||||||| |||||||| | || ||||||||||||| | || ||| |||||||||||||||||||||||| || |||||| | ||||| ||||| | ||||| || || || ||||||||||||||| | |||||||||||||||| || | ||
-------------tttctttttctttcctgaagccaggtatgtcagatgctcttttttgtaaatttaccaaaaggtaaagcaactgaatttacgctcctggatttgatggaagCTTAGCAGAACTGGAGAAAATTTTTGAAATTGCAATTGGGGGATCAGAAGATGAAAAGATATCTGCTGCTGCCATTCTTTGCGGGGCATCCCTAATTCGT
upper sequence: AT3G23590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G28070.1 (Glycine max), 3'ss of exon 8
tcttcttcagttattcctttttgtttctt--agccaggta------atgctcttttttt--aatttaccgagag-taaagcaactgaaat-ac-ctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
|| |||||| |||| | ||||||||| |||||||||||| |||||||| | || ||||||||||||| | || ||| |||||||||||||||||||||||| || ||||| | ||||| ||||| | | ||||| || || || ||||||||||||||| | |||||||||||||||| || | |
-------------tttctttttctttcctgaagccaggtatgtcagatgctcttttttgtaaatttaccaaaaggtaaagcaactgaatttacgctcctggatttgatggaagCTTAGCAGAACTGGAGAAGATTTTTGAAATTGCAATTGAGGGATCAGAAGATGAAAAGATATCTGCTGCTGCCATTCTTTGCGGGGCATCCCTAATTTGT
upper sequence: AT3G23590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0020g02570.t01 (Vitis vinifera), 3'ss of exon 7
tcttcttcagttattcctttttgtttcttagccaggta------atgctcttttttt--aatttac-cgagagtaaagcaactgaaat--acctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
| | ||| | | ||||||||| |||||||||||| ||||||| | | ||||||||||||||| | | ||||| |||||||||||| |||||||||||||||||| |||||||| ||||||||| |||||| ||||| |||||||||||||||||||| | ||||| || || ||| | | |||
-----------cactgttttctttcctgaagccaggtatatcagatgctcttttttgtaaatttactcaacagtaaagcaactgaatttaagctcatcaatttgatggaagTTTAGCAGAGCTCGAGAAAGTATTTGAGATTGCAGTCAGAGGATCAGATGATGAGAAGATATCTGCTGCTACTATCCTTTGTGGAGCCTCTTTGATTCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttaatttaccgagagtaaagcaactgaaatacctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
taattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttcttcagttattcctttttgtttcttagccaggtaatgctctttttttaatttaccgagagtaaagcaactgaaatacctcatggatttgatggaagCTTAGCAGAGCTCGAGAAACTATTTGAGGTTGCAGTCAAAGGATCGGATGACGAGAAGATATCTGCTGCTACAGTTCTTTGCGGGGCATCTCTCACACGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
-cttcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaatac