Sequence
atgc intronic sequence ATGC exonic sequence...tcaaatttagactaatgattaaaataaaataatgcttttgatgtaactccattctgtgcatctccattacatcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
Basic information
species | Glycine max |
transcript | GLYMA02G16130.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g08400.1 (Oryza sativa), 3'ss of exon 13
tcaaatttagactaatgattaaaataaaataatgcttttgatgtaactccattctgtgcatctccattacatcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
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----gtaatacctcttggcttgtttttttttatgcatcttaggcaggtaatcttgaaactcttgtgagctgttatctgaagttgcttacctttattttagATACTTGAGGCGTTGAATAAAGGTGAAATTCCATCAACAGGATCACTTGTAGAAGTATTCAATAAGGCAATTCTTGAGCGCTGCTTAAAGTTGTATAATG
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 14
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 13
tcaaatttagactaatgattaaaataaaataatgcttttgatgtaactccattctgtgcatctccattacatcactttgat---tttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
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--acgttgttgatatgtaacactattggcttatatgatttctataa-tatgccttatatgcttacgaaatggtatgttgatatattccaattctgattgctagATATTGGATGCGTTAAATAAAGGAGAGATCCCATCAACAGGATCACTAGTTGAGGTTTTCAATAAAGATATTGTTGAGAGATGTGTGAAGCTGTACAATG
upper sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 12
tcaaatttagactaatgattaaaat--aaaataatgcttttgatgtaactccattctgtgcatctccattacatcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
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aagaaggggaaaggataagaaatattgaaaataa-actttcaaattcagtttatgataaac-tttctaacgattctcttcaattataaatttgatatttcagATACTTGAAGCCTTGAATAAAGGGGAGATTCCTTCAACAGGCTCTCTTGTGGAGGTTTTTAATAAGGGTATTCTTGAACGGTGTTTGAAGCTATATAGTGMapped 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|207771339|gb|GD746454.1|GD746454EST: AAAGACTCTAAACGGGAAGGAGTTTGTCTCCTTTCTGGAGCAG ATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTG
genomic: AAAGACTCTAAACGGGAAGGAGTTTGTCTCCTTTCTGGAGCAGgtactttatt ... tcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actccattctgtgcatctccattacatcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
ttttgac putative branch site (score: 3)
cctttc CT-rich tract
tttcaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaatttagactaatgattaaaataaaataatgcttttgatgtaactccattctgtgcatctccattacatcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTTAAGTTATACAGTG
- - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - -gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatcac