Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaatcatagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
Basic information
species | Glycine max |
transcript | GLYMA20G31320.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 8
gtgagcaatcatagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
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gtaagcgtcca--atagaacaagcg-aac--ttggagaataatattgagccaactttgattgagattcattatttgt---tacagCTGAGGAGGATCCAGAGGTCCATCTTGGCCAGCTTAAAAGATTTTCACTACGAGAACTACAAGTTGCAACAGATACCTTCAGCAATAAAAACATTCTCGG
upper sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G384439_T01 (Zea mays), 3'ss of exon 8
gtgagcaatca-tagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
|| || | ||| || ||||| | | | | | || | | || | ||| | | | | || ||||| || || ||||| || || ||||| || |||||||| || || |||||||||||| | ||||||||||||||| | ||||| |||||||||||||||||
gtaagtattcaacaggagaataacttagggaa---caacattgaatttgaattaacttaatgtgaga-cttcgaatgtg---gcagCCGAGGAAGATCCAGAGGTGCATCTTGGCCAGCTTAAAAGATTTTCACTACGAGAATTACAAGTTGCAACAGATGGCTTCAGCAATAAGAACATTCTTGG
upper sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G115420_T01 (Zea mays), 3'ss of exon 8
gtgagcaatcatagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtt--tgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
| || | || | ||| | |||| | | | | | | || | || || || || | |||| || |||||||| ||||||||||| || ||||| || | ||| ||| | || || || ||||||||||| |||| ||||||||| ||||||||| | ||
----gtctgtatcatatggtgtactttgttttttgttaacccatattgcctgtttgt----tcatctgctggcccattttgcttcagCCGAGGAGGATCCAGAAGTCCATCTTGGTCAGCTCAAAAAGTTTTCATTGCGGGAGCTTCAAGTTGCAACTGATAATTTCAGTAACAAGAACATTTTAGG
upper sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 8
gtgagcaatcatagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
||| | | | || || || | ||||| | | ||| || | | |||| || | | | ||||||||||||||||| || || || |||||||| |||||||| ||||| ||||| |||||| | |||||||||||||||||||| || || ||||||||||| ||
---------gttagtggtttaactgaaaaagattattaaccttgcgtatggatagat--tatcatttgtttacgtctctttgcagCTGAAGAGGACCCAGAGGTTCATCTGGGGCAGCTTAAAAGGTTTTCACTGCGAGAATTACAAGTTGCAACAGATAGTTTTAGCAACAAGAACATTCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
tttaaagaatatatag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaatcatagaagaatgggtataacagtttctaaacctgtttaaagaatatatagtttgatttccttgcttatgtttgcagCTGAAGAGGATCCTGAAGTCCATCTGGGACAGCTTAAGAGGTTCTCACTACGAGAACTGCAAGTTGCAACAGATAGTTTCAGTAATAAGAACATTCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC