Sequence
atgc intronic sequence ATGC exonic sequence...tgaatgttgaacttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtccaagagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
Basic information
species | Glycine max |
transcript | GLYMA11G14020.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 4
-----tgaatgttgaacttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtccaagagttaattttaaaattctcttttct-catgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
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atcatagtatattcatattttatatgttgtttttcttgttgg---tttagctgccttcaactgaaa---cattacttcgcaaagcgttcctattttctgcttgtagGCTGATGACATATCTGGATTTCATGCCAATACACATATCCCAATTGTTGTTGGAGCTCAAATGCGGTATGAAATCACTGGTGATCCACTTTATAAG
upper sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
--------tgaatgttga-acttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtccaagagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
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atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaat---------atttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
upper sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S60_268V6.1 (Physcomitrella patens), 3'ss of exon 5
tgaatgttgaacttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtcca----------agagttaattttaaaattctc---ttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
| |||| | | ||| || | | ||| || | | | ||| | | | ||||| | | | | || ||| || || |||| || | | || ||||||| | ||||||||||| ||| ||||||||||| |||| ||||| ||||| | || |||||| | | || |
--------gtacttcttgc--tctatcttacagccaagttctgccctgaccacatgccaaagctgatacgtcacatacagttaggctgaggactgtcacgtttccttctgcagGCGGATCATCTTTCTGGTTTTCATTCGAATACACATATTCCAATTGTTGTTGGAGCTCAGATGCGTTATGAGGTGACCAGCGATCTAATCTACAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaattttaagtcaaggtccaagagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
ttctcttttctcatgt CT-rich tract
agttaattttaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaatgttgaacttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtccaagagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
tgaatgt