Sequence
atgc intronic sequence ATGC exonic sequencegtttgttattagagtctagttaaaagtcctaaaccctttcttgagatggttcttatgttgctgaatgtttcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G72330.3 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G05130.1 (Glycine max), 3'ss of exon 6
gtttgttattagagtctagttaaaagtcctaaaccctttcttgagatggttcttatgttgctgaatgtt-tcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
||||| | |||| | | | || | | ||| | | | ||| | ||| || ||| ||||||| ||||||| || |||||| ||| || |||||||| |||| ||||||||||| ||||| |||| |||| |||||| |||||||||||||||| |
-----gtattaa--ttgggttatcaaattttggcttatttcattgcta-ttcacaggcagggccatgaaattattcttatttccatgtcagGGTGTCAAGGGCTTGCGTGATACAATAGCTGCTGGAATTGAAGAGCGTGATGGTTTTCCTGCCAATCCTGATGACATTTTCATGACTGATGGTGCAAGCC
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G01630.2 (Glycine max), 3'ss of exon 4
gtttgttattagagtctagttaaaagtcctaaaccctttcttgagatggttcttatgttgctgaatgtt-tcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
||||| | |||| | | | || | | | ||| | | | ||| | ||| || ||| ||||||| ||||||| || |||||| ||| || |||||||| |||| ||||||||||| ||||| |||| |||| |||||| |||| ||||||||||| |
-----gtattaa--ttgggttatcaaattttggcttatttctttgcta-ttcacaggcagggccatgaaattattcttatttccatgtcagGGTGTCAAGGGCTTGCGTGATACAATAGCTGCTGGAATTGAAGAGCGTGATGGTTTTCCTGCCAATCCTGATGACATTTTCATGACAGATGGTGCAAGCC
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv09s0002g00340.t01 (Vitis vinifera), 3'ss of exon 6
-----------------gtttgttattagagtctagttaaa--agtcctaaaccctttcttgagatggttcttatgttgctgaatgtttcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
| | || || | | | | | ||| | ||| || | || | | | | | | | | |||| || | |||||||||||| || || |||||| ||||| |||||||| ||||| ||||||||||| ||| || |||||||||| ||||||||||||||||||||||| |
gcaatgattacacccccctctaccatgggattttgggaagtttgatgttaattcattttttatggtgaga--tgtcatatcaattttattgtatttttgtccacatcagGGTATCAAAGGATTGCGTGATACTATTGCTGCTGGAATTGAAGCTCGTGATGGTTTTCCTTCTAATCCAAATGACATTTTCTTGACTGATGGTGCAAGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcttgagatggttcttatgttgctgaatgtttcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
tttcattttttgttct CT-rich tract
aatgtttcatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttattagagtctagttaaaagtcctaaaccctttcttgagatggttcttatgttgctgaatgtttcattttttgttctgcctcagGGTATCAAGGGTTTACGTGATGTAATTGCAGCTGGAATCGAAGCACGTGATGGTTTCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT