Sequence
atgc intronic sequence ATGC exonic sequencegttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
Basic information
species | Glycine max |
transcript | GLYMA11G10130.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g71320.1 (Oryza sativa), 3'ss of exon 6
------------gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaa-attttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
|| | ||| || || | ||| || || || || ||| | | |||| | | |||| |||| |||||||||||||||||||||||||||||||| || || | || || ||| || ||| | || |||||| | ||||| | | ||
gtagcaacctgggtaaaattcaattattctggtatcttgtgttgtggtttagactga--------acactttgtactaccatgattcagGGCTTTGAGAAAATGATATCAGGAATGTATCTTGGGGAAATTGCAAGATTGGTATTTCATAGAATGGCCCAGGAATCAGATGTTTTTGGTGATGCTGCTG
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G50460.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcag-at--tttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
||| | | | | || ||| | | || | | | |||| || ||||| || | | ||||| |||||||| |||||||||||||||||||| |||||||| || | ||||| ||||| | |||| ||| || ||||| |||||||| || ||
gtaatctttgccatacttccctgtttttccgatttggtattgcgttattagtttttaaccaattaacatcaacatcatttggggtttcttacatagGGATTTGAGAAGATGATATCAGGAATGTATCTGGGTGACATTGTTCGTAGAGTAATTCTCCGCATGTCAGAAGATTCTGATATCTTTGGACCCATCTCGC
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 6
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
|| |||| || || | | | | ||| | ||| || |||||||| ||||| | ||||||||||||||||||||||||| ||||| | |||||||| ||||||||||| ||||| || |||| | |||||||| || ||||||||| ||||||
gtacagttcaattacttgcccttgtctcttcgatgttccag-tgaacaaatcaagattttgaggcttttgtttcagGGTTTTGAGAAAATGATATCAGGGATGTACTTGGGTGACATTGTGAGGAGAGTTATTCTCAGAATGTCACAGGAGTCAGACATTTTTGGACCTGTTTCTT
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatg-tagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
|| | | || || | ||| | | | | | || |||| |||||||| || | || ||||||||||| |||||||| |||||||| |||||||| | | | || || | | ||||| |
---------------------------gtgagatacttgcaattgcttgta-cagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ25912 (Selaginella moellendorffii), 3'ss of exon 6
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttga--tgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATG-TTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
| | | | || | | | | | ||| ||||| || ||||| |||||||| |||||||| || |||||||| ||||||||||| | | || ||| || || | |||||| |
-----------------gtaagcttgaaaatgaccacaaaaacaattcctaccctaccctacctgtgttggactgtagATATTCGAGAAGATGATATCTGGAATGTACCTGGGTGACATTGTGAGGAGAGTGTTGTGGAAACTGGCTGCCGAAGCGGCAT-TCTTTGGAGGAAAGGTAC
upper sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ10895 (Selaginella moellendorffii), 3'ss of exon 6
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATG-TTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
| | ||| | | | || | | | | || ||| ||||| || |||||||||||||| |||||||| || |||||||| ||||||||||| | | || ||| || || | |||||| |
-----------gtaagcttgaaaatgaccacaaaaacaattcctaccctaccctacctgtg----tttgactgtagATATTCGAGAAAATGATATCTGGAATGTACCTGGGTGACATTGTGAGGAGAGTGTTGTGGAAACTGGCTGCCGAAGCGGCAT-TCTTTGGAGGAAAGGTACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|207848853|gb|GD818884.1|GD818884EST: CATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAG GGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGA
genomic: CATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAGgttaggttct ... tttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGA
EST:
gi|207829107|gb|GD798097.1|GD798097EST: CATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAG GGTTTTGAGAAAATGAT
genomic: CATCTTATGATATTGATTTAGACTCTGAAAGCCCTAATCCAAATGATCAGgttaggttct ... tttgatgtagGGTTTTGAGAAAATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccagttgcttgattcaggatgactcaaatcagattttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
ttttgat putative branch site (score: 4)
attttggaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatgtagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG