Sequence
atgc intronic sequence ATGC exonic sequencegttttttgatattgtttggcccaaattgattgaatgttttatttgattcacaattgactttgctttgtgagatactgtttttcattaaagtaatgtgcatttagccagctgttcggtttatttccagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA
Basic information
species | Glycine max |
transcript | GLYMA19G42990.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os12g06810.4 (Oryza sativa), 3'ss of exon 17
gttttttgatattgtttggcccaaattgattgaatgttttatttgattcacaattgactttgctttgtgagatactgtttttcattaaagtaatgtgcattta-gccagctgttcggtttatttc-cagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA--------------------------------
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-------------------------------------------------ggagatcattatgcttt-----------tcttgcattaggttcttatacctctgtgataaatattactaatatgaagcaggttttggcacccgaaatgagcttggccacagTGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAGTGGTCCAGTCAAGATGATTGCAACTTGAAACGAATGTTCACCCTAGGAG
upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os12g06810.3 (Oryza sativa), 3'ss of exon 7
gttttttgatattgtttggcccaaattgattgaatgttttatttgattcacaattgactttgctttgtgagatactgttttt-cattaaagtaatgtgcattta-gccagctgttcggtttatttc-cagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA-
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----------------------------gtcaaatgctgaatcctgtttat--ttcaatttggagatcattatgcttttcttgcattaggttcttatacctctgtgataaatattactaatatgaagcagGTTTTGGCACCCGAAATGAGCTTGGCCACAGTGCGGGCTTATGTCTGGAAGAAGCCAGAGGATTTGATTCTTAACTACAAAGTGGTCCAGTCAAGATGAT
upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
gttttttgatattgtttggcccaaattgattgaatgtttt-atttgattcacaattgactttgctttgtgagata---ctgtttttcattaaagtaatgtgcatttagccagctgttcggtttatttccagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA
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---------------------gaaattttcagcattttcccatttcctttccccttctctggggattcagaaagagccttggtattcttgataacaatgt-ctttta--------tttgttgtgtttt-agGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG--------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactgtttttcattaaagtaatgtgcatttagccagctgttcggtttatttccagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA
tttatttcc CT-rich tract
tttttcattaaagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttttgatattgtttggcccaaattgattgaatgttttatttgattcacaattgactttgctttgtgagatactgtttttcattaaagtaatgtgcatttagccagctgttcggtttatttccagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG