Sequence
atgc intronic sequence ATGC exonic sequence...cttagtgagtaggagttgcttaaagtaactgcctagtagaatttggcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
Basic information
| species | Glycine max |
| transcript | GLYMA18G16990.1 |
| intron # | 14 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os10g27220.1 (Oryza sativa), 3'ss of exon 6
-cttagtgagtaggagttgcttaaagtaactgcctagtagaatttggcgttgtttagc-ttatgaaaattttccattatttgttcactatatctgct-tacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
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cagcagtcttatctggtttgttatatttatttctt-gcataacttat--ttggttagtacaatgctgaactgtaaacagctgacacttgctcatgttgtgtagGTTGCTAGCTTAGTTAAGAAAGGTGCCCATAAGATAACTCTCAGTATTGGTGATGGTGCTAATGATGTGAGTATGATTCAAGCTGCTCATGTGGGGATTG
upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G020553_T01 (Zea mays), 3'ss of exon 1
cttagtgagtaggagttg----cttaaagtaactgcctagtagaatttggcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
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--aagcaaatgggggcaatagtctctgattgattgcatggtttcattgcacagtcttgtatacgtgaaaatataaaatgctgacattaatgtgtata--tgtagGTTACAAGCTTAGTTAGGAAGGGTGCTGAGAAAATAACTCTCAGCATTGGTGACGGTGCTAATGATGTGAGTATGATTCAAGCTGCTCATGTTGGGATTG
upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 21
cttagtgagtaggagttgcttaaagtaactgcctagtag-aatttggcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
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--------gtaaga--tgttttattttgttgttttgaagcaacttggc-tgaagta--tcatgtcagctgaatattgagaaatcactattgttgtttgtagGTGACAAGCCTGGTCAAGAAAGGTGCACGGAAAATAACACTTAGTATTGGTGATGGTGCCAATGACGTCAGCATGATTCAAGCGGCTCATGTTGGCGTTG
upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S87_152V6.1 (Physcomitrella patens), 3'ss of exon 22
cttagtgagtaggagttgcttaaagtaactgcctagtagaatttggcgttgtttagcttatgaaaattttccattatttgttcac-----tatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
|| |||||| || | || || | | | || || || ||||| || ||| ||||||| ||| | || | || | ||||| || | | ||||| | | ||| | || ||||| | || |||||||||||||||||||||||||| |||||||| |||||||| |||| || |
-tttctgagtattcacacttttgaa-aagtgtagttcaagttctagc-ttaggtatgttatgtaa--ttttcattattcgtttgcacttccatttttgtatgcagGTGACAACACTCATCAAGGACGATGCTAAGAAGATTACCTTGAGCATTGGTGATGGAGCCAATGATGTTAGTATGATTCAGGCTGCTCACATTGGAGTAG
upper sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ31523 (Selaginella moellendorffii), 3'ss of exon 22
cttagtgagtaggagttgcttaaagtaactgcctagtagaatttggcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
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--------------------------------------------gtaagtgtttcctttcc----atttgtgtgttttgatcttgtaattctattggcagGTAACGAAACTAGTGAAAGACGGAGCCAAGAAAATAACTTTAAGCATTGGTGATGGTGCTAACGACGTGAGCATGATTCAAGCTGCTCATATCGGGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
tctgctt CT-rich tract
ttatgaaaattttcca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttagtgagtaggagttgcttaaagtaactgcctagtagaatttggcgttgtttagcttatgaaaattttccattatttgttcactatatctgcttacagGTCACGAGTATGGTCAAGAAAGGTGCACAAAAAATTACACTTAGTATTGGTGATGGAGCCAATGATGTTAGCATGATTCAAGCTGCTCATGTTGGCGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
cttagtg
- - - - - - - gttgctt
- - - - - - - - - - - - - - ctgccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttcac
