Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatcatttttcctatatatagcctttcatttaataatcttgccatgctagtcttggaagttatggtgtctaagtgtactttttatgctactagGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00710.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G07850.2 (Glycine max), 3'ss of exon 4
gtgagaatcatttttcctatatatagcctttcatttaataatcttgccatgctagtcttggaag---ttatggtgtctaa--gtgtactttttatgcta--ctagGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
| | ||| || || | | || || | ||| ||| |||| || | || ||||||||| || |||| | | ||| ||||||||| ||||| ||||||||| | ||| | ||| |||||||| || |||| ||||||||||| ||||||||||| |||||||| ||| |||| || ||
-tttgctatattgttatgat-tgt-gctgttggagtgata--ctttatatgccagacccttgagtttttatggtgtgaaataatgtagtcatgtgtctaaatcagGGGAAACACAACCCATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATCTTGCACAAGCTCTAGAATACTGCACAAGCAAAGGGCGTGCTCTCTATCA
upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 4
gtgagaatcatttttcctatatatagcctttcatttaataatcttgccatgctagtcttggaagttatggtgtctaagtgtactttttatgctacta-----gGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
| || || || || || | ||| ||| |||| || | |||||| || || | | ||| ||| |||||||| ||||||||||||||| | ||| | ||| |||||||| || |||| ||||||||||| || |||||||| |||||||| ||| |||| || ||
-tctttgctatattgttatgattgtgctgttggagtgata--ctttatatgccagacccttgagttattatggtgtgaaataatagtcatgtgtctaaatcagGGGAAACACAACCTATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATCTTGCACAAGCTCTAGAGTACTGCACAAGCAAAGGGCGTGCTCTCTATCA
upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 4
gtgagaatc-atttttcctatatatagcctttcatttaataatcttgccatgctagtcttg-gaagttatggtgtctaagtgtact-ttttatgctactagGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
| | || | ||| | | ||||| || | || | | || | | |||| | || | || | || | | ||||||||||||||||||||||||| | ||| || || | || ||| || |||| || |||||| | ||||| || || ||| ||| ||| | ||||||||
-tagcagtcgagtttgcattgatatatttagcaggatatatctattaatgagtttgtatcctgctattatatgggatacttataatacttccttgaatcagGGGAAACTCAACCTATGAAATGGGCAATGCGGTTAAGGGTGGTTCTACATCTTGCCCAAGCTTTAGAATATTGTACAGGCAGAGGGCGTGCCCTTTACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgccatgctagtcttggaagttatggtgtctaagtgtactttttatgctactagGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
ctttttat CT-rich tract
tactttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatcatttttcctatatatagcctttcatttaataatcttgccatgctagtcttggaagttatggtgtctaagtgtactttttatgctactagGGGAAACTCAACCTATGAAATGGACTATGAGGCTACGAGTTGTTTTATATCTAGCACAAGCTCTTGAATACTGCACCAGCAAAGGCCGTACTCTTTACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG