Sequence
atgc intronic sequence ATGC exonic sequence...acgtaatcataacctgtttgtagtactatataatatgatagatcaacatgttttcttatctttgtatacgtttgcttccattgaaaccaaaatgttttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
Basic information
species | Glycine max |
transcript | GLYMA17G00440.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G58060.1 (Arabidopsis thaliana), 3'ss of exon 24
acgtaatcataacctgtttgtagtactatataatatgatagatcaacatgttttct----tatctttgtatacgtttgcttccattgaaaccaaaatgttttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
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--ttagttccgattgat--ggaatatcaactaagtagagagttttgcatacctttgagagtttttttgtcctgagctttctcgtgtgaaccctgtcttctttagGTTGGTGCTGTTGAAGGGGATGAAGAGTTGACACCACTTGGGCATCATTTAGCCAAACTTCCTGTTGATGTGTTAATTGGAAAG
upper sequence: GLYMA17G00440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G58050.1 (Arabidopsis thaliana), 3'ss of exon 24
acgtaatca-taacctgtttgtagtactatataatatgatagatcaacatgttttcttatctttgtatacgtttgcttccat-tgaaaccaaaatgttttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
| || || | | | | | | || | || | | || || |||||| | | | | ||| | |||| || || |||||||| || |||||||||||||| || |||||||||||||| || |||||| | |||||||||||||| ||| |||||||||| |||
-ctcaaccactgattttaatatccagtcagtaaaaactatgtgtatatatacctttgtatcttc-tctgctggtatttctttatgaaccctgtattttttagGTCGGCGCTCTTGAAGGGGACGAAGAGTTGACACCACTAGGACATCATTTAGCAAAACTTCCTGTTGATTTGTTAATTGGAAAG
upper sequence: GLYMA17G00440.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0035g00800.t01 (Vitis vinifera), 3'ss of exon 22
acgtaatcataacctgtttgtagtactatataat-atgatagatcaacatgttttcttatctttgtatacgtttgcttccat-tgaaaccaaaatgt--tttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
||| | || | | | | ||| ||| || | || | ||||| | | | || | || | | || || | | |||||||||||||| ||||||||||||| |||||||| || |||||||||||| |||| ||||||||||| |||||||||||||| |||
----aattctgacatttactttacccaataaaattattagtaattactcagttttttgagcatttatcaaaattcatccaatactcaattggactaccatttagGTTGGTGCTATTGAAGGGGATGAAGAGTTGACGCCTCTTGGGCATCATTTGGCTAAACTTCCTGTTGATGTGTTAATTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgttttcttatctttgtatacgtttgcttccattgaaaccaaaatgttttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
aaaatgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgtaatcataacctgtttgtagtactatataatatgatagatcaacatgttttcttatctttgtatacgtttgcttccattgaaaccaaaatgttttagGTTGGTGCTCTTGAAGGGGATGAGGAGTTGACACCACTTGGGCATCATCTGGCAAAACTTCCTGTGGATGTGTTAATTGGGAAG
- - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - -atcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaacc