Sequence
atgc intronic sequence ATGC exonic sequencegtaagattctgaagcttaattgacgtttctgcttcatgaaaatggacacactgataaagattaatcctgtttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10360.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G35290.1 (Glycine max), 3'ss of exon 10
------gtaagattctg-aagcttaattgacgtttctgcttcatgaaaatggacac--actgat------aaagattaatcctg---tttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
| | || || | ||| || | ||| || ||| ||| | ||| || | | || | ||| | ||||||||| | ||||||||||||| ||||||||| | ||||||| ||||||||||| |||||||| |||||||| ||||||||||||||||| ||||
atgccgttttgtttatgtatgctgtatcataatatctattttatgttaattgttgtttactaattcctttgtacttctataccataattttctttggtagCATATTGTGGAACATGGTAAACCACATGAACGGACTACCATTATCAGCAAGCTTGCTGGTCAGATTGTTAAGATGAGCCAGCAAAAGTTTGCTTCAAATG
upper sequence: AT3G10360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G32230.1 (Glycine max), 3'ss of exon 10
------gtaagattctg-aagcttaattgacgtttctgcttcatgaaaat-ggacacactgataaa--gattaatcctg--------tttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
| |||| || ||| || | ||| || ||| ||| | ||| || ||| | || ||| | ||||||||| | | ||||||||||| ||||||||| | | ||||||| |||||||| || |||||||| |||||||| ||||||||||||||||| ||||
atgctgttttgattatgcgggctgtatcataatatctattttatgttaattgtgtttactaattcctttgttacttctataccatacttttctttggtagCATATTGTGGAGCATGGTAAACCACATGAACGGACTGCTATTATCAGCAAGCTTGCCGGGCAGATTGTTAAGATGAGCCAGCAAAAGTTTGCTTCAAATG
upper sequence: AT3G10360.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv13s0019g04640.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------------------------------------------------------------------------------------------gtaagattctgaagct--taattgacgtttctgcttcatgaaaatggacacactgataaagattaatcctgtttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
|| ||| | | | || || || | | || | | | | || || | | || | | | |||||| || | ||| ||||||| || || ||||| || | ||||||| |||||||| ||||| || || |||||||||||||| ||||||||||||||||
gtacttttactaataaattttttgtttattttcttgttagatttcatgcttgaattccctttctctggtacttgtttcttttctgacttttcccttttgatgatctctgttttatcattattgtgttattattttacctataattttttttttacttcatttgtcccctgaggttcgttcctttgcttgtt-tagCATGTCTTGCAATATGGTAAGCCACACGAACGATCTGCTATTATCAGCAAGCTTGCAGGACAAATAGTAAAGATGAGTCAGCAGAAGTTTGCTTCTAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgcttcatgaaaatggacacactgataaagattaatcctgtttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
gattaat putative branch site (score: 3)
tcctgtttcc CT-rich tract
tgataaagattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattctgaagcttaattgacgtttctgcttcatgaaaatggacacactgataaagattaatcctgtttccggctgtagCATATCATACAACATGGTAAACCTCATGAACGGTCAGAAATTATCAATAAGCTTGCTGGACAGATTGTGAAGATGAGTCAGCAAAAGTTTGCTTCTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG