Sequence
atgc intronic sequence ATGC exonic sequence...atgagattctatagttttcaattttttggatacattttataattttgatattagtaactcacacttcacttcatgcatgaaaactgtattcaattcacagGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
Basic information
species | Glycine max |
transcript | GLYMA06G46940.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G46940.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G30420.1 (Arabidopsis thaliana), 3'ss of exon 16
atgagattctatagttttcaattt--tttggatacattt---tataattttgatattagtaact-cacacttcacttcatgcatgaaaactgtattcaa----ttcacagGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
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gtgaatcctcaaaatatccctcttgcttagattatgttgagacgcaatattagtttatgcaattgtacacatgacattctgatcatggtgtttgctcgaatattttccagACATCCAAACCCACATTATCGGATATCAATTTGGAGATACCGGTGGGCAGCTTGGTTGCCATTGTAGGTGGAACTGGAGAAGGTAAGACGTCACTTATTT
upper sequence: GLYMA06G46940.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv10s0003g04450.t01 (Vitis vinifera), 3'ss of exon 5
---atgagattctatagttttcaattttttggatacattttataattttgatattagtaactcacacttcacttcatgcatgaaaactgtattcaattcacagGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
|| | | | | | | | | ||| |||| | | || || | | | || | | | | | | || ||| |||| | | ||||| || |||||| |||||||| |||| |||||||||||||||||||||||| | |||| ||||||||||||| || ||||||||||| |
aatcaaagctacaaggaaggatgagctatcatgttgactttctaatgt-attttttgtg--taagaaagcagtcctaatgttcagtttttttttttttcccagGCAAAAAAACCCACTTTATCAAATATCAATTTGGATATACCAGTTGGCAGCTTAGTTGCAGTTGTTGGTCGTACTGGAGAAGGAAAGACATCACTTATAT
upper sequence: GLYMA06G46940.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv10s0003g04470.t01 (Vitis vinifera), 3'ss of exon 17
atgagattcta--tagttttcaat-tttttggatacattttataattttgatat-tagtaactcacacttcacttcatgcatgaaaactgtattcaattcac-agGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
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-----attccaagcaatcatgaaagtttttaaatatattttttttgtatgaaagatagctgttcttaaatcctcttttacagttcttaaatattctattttttagGTAGAGAAGCCCACTTTATCAAATATCAATTTGGATATACCAGTTGGTAGCTTAGTTGCAGTTGTTGGTGGCACTGGAGAAGGAAAGACATCTCTCATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatattagtaactcacacttcacttcatgcatgaaaactgtattcaattcacagGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
tattcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgagattctatagttttcaattttttggatacattttataattttgatattagtaactcacacttcacttcatgcatgaaaactgtattcaattcacagGAAGAGAAACCGACATTATCAGATATCAATGTGGAAATACCAGTTGGCAGCTTAGTTGCAATCATTGGCGGTACTGGAGAAGGCAAAACATCACTTATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aactcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgaa