Sequence
atgc intronic sequence ATGC exonic sequence...tgccttgctataattttggagctttttggttcagtgagtagcaaacttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT
Basic information
species | Glycine max |
transcript | GLYMA18G46340.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 4
-----tgccttgctataattttggagctttttggttcagtgagtagcaaacttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT-
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ataaatatttctacaaaccattgaaacttcatgcagca-taattggttccatttctgcttgtgttga---acctctgcatctgat--tggccgttgcttatttcagGTTGACATGATAGTTGTGACTGATGGGAGCCGTATTCTAGGTCTAGGTGATCTTGGAGTTCAGGGCATAGGTATACCTATCGGTAAACTTGATGTTTATG
upper sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G085747_T04 (Zea mays), 3'ss of exon 4
----tgccttgctataattt-tggagctttttggttcagtgagtagcaaacttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT-
| | | | | | || || | | ||| | | |||| | | || || | | | | || | | | ||| |||||||| |||||||| || |||| ||||| ||||| ||||| ||||| ||||||||||| ||||||||||| || |||||||| || ||||| || | |||
ctttagtcataccaaaccaaacggggcctaatatgtcaatatgcagcatgcattcttcc-aattctggctgt-----atcatgcaagtggttgacacttttttcagGTTGACATGATAGTTGTGACTGATGGGAGTCGCATTCTAGGCTTAGGTGACCTTGGTGTTCAGGGCATAGGTATACCTATTGGTAAACTGGATGTTTATG
upper sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 4
----tgccttgctataattttggagctttttggttcagtgagtagcaaacttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT-
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agtaaaaatggttgta--ttcagcattctttggtggcaggattag--gtttttctcactgttcttgtcttataatggacgttctg-tttctcttatgtgttgcagGTGGACATGATAGTGATAACAGATGGCAGTCGTATTCTTGGTCTGGGTGACCTTGGAGTTCAGGGAATTGGAATTCCTATTGGGAAACTTGATATGTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT
tctcttttccttgttt CT-rich tract
atttatttttggttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgccttgctataattttggagctttttggttcagtgagtagcaaacttgctccctggcttcatttatttttggttataataatctcttttccttgtttcaGGTAGACATGATTGTCTTGACAGATGGTAGTCGTATTCTTGGCTTGGGTGACCTTGGAGTTCAGGGCATTGGAATACCTATAGGAAAACTTGACATGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- ccttgct
- - - - - - - - - - - - - - -ttcagtg
- - - - - - - - - - - - - - - - - - - - - - - -tgctccc