Sequence
atgc intronic sequence ATGC exonic sequence...gctatatcaattatcaagtattggcaaaactcacaaaataatagtcatcattgccattctatgctttataatgagcttaactaaattgatctttcagcagGTCTCTCATGGTGCTATTCAGTTCACAGCATATGAGGAGCTACGCAAGGTTATTGTTGATTTTAAGAGTAAGGGAAGTACAGTGCATAATCAAAACCCTG
Basic information
species | Glycine max |
transcript | GLYMA16G24580.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G24580.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G66380.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------------------------------gctatatcaattatca-agtattggcaaaactcacaaaataatagtcatcattgccattctatgctttata-atgagcttaactaaattgatctttcagcagGTCTCTCATGGTGCTATTCAGTTCACAGCATATGAGGAGCTACGCAAGGTTATTGTTGATTTTAAGAGTAAGGGAAGTACAGTGCATAATCAA-AACCCTG
||| ||| || ||| |||| || | || || | | | | | | || ||| | || | || ||| |||||||||| |||||||||||||||||||||||||| |||||||| || || || | ||||| ||||| || || |||| | | ||| | | || || |
gttagtaactatcctgatctatctcttgtaacgttcgttcgtaaaactaccacaagatccacagttttgg--aactataaaagatgactattagttgcgaaagaggaggccttacagattgaatggtttacattttgggttcagcagGTTTCTCATGGTGCTATTCAGTTCACAGCTTATGAGGAACTCCGTAAAATCATTGTGGATTTGAA-AGAAAGGAGAAGAAAGTCCGAATCCACTGACAATC
upper sequence: GLYMA16G24580.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g02600.t01 (Vitis vinifera), 3'ss of exon 6
---gctatatcaattatcaagtattggcaaaactcacaaaataatagtcatcattgccattctatgctttataatgagcttaactaaat-tgatctttcagcagGTCTCTCATGGTGCTATTCAGTTCACAGCATATGAGGAGCTACGCAAGGTTATTGTTGATTTTAAGAGTAAGGGAAGTACAGTGCATAATCAAAACCCTG
| || | | | | | | | ||| ||| | | | ||| || | | || ||| | | | || | |||||||||| |||||||||||| ||||||||| | |||||||| || || || || ||||||| |||||| |||| | ||||| | || | ||
attatagtgctaagttatgaatctgtgtcagatatgcaagctaaga-taggattcagcatgctttccatttatgtgaattctgttgtttgtgttgcttcagCAGGTTTCTCATGGTGCTGTTCAGTTCATGGTGTATGAGGAACTTCGTAAATTTGTTGTTGAATTTAAGTGTAAAGAAAGTAACAAGAATCTTGGAAGTG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcattgccattctatgctttataatgagcttaactaaattgatctttcagcagGTCTCTCATGGTGCTATTCAGTTCACAGCATATGAGGAGCTACGCAAGGTTATTGTTGATTTTAAGAGTAAGGGAAGTACAGTGCATAATCAAAACCCTG
tctttc CT-rich tract
ttaactaaattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctatatcaattatcaagtattggcaaaactcacaaaataatagtcatcattgccattctatgctttataatgagcttaactaaattgatctttcagcagGTCTCTCATGGTGCTATTCAGTTCACAGCATATGAGGAGCTACGCAAGGTTATTGTTGATTTTAAGAGTAAGGGAAGTACAGTGCATAATCAAAACCCTG
- - - - - - - - - - - - - -aactcac
- - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttta