Sequence
atgc intronic sequence ATGC exonic sequencegtaatttttcattctacttcaatgtcactagttatgcttctactaaaaaagttgccatgggaatgatgatttggcttctttcagGAATTTTCCTCCATGATCCTGTCAGTTTTGTGGCAGTTGTGCGTCCAGATCTTTTCACATACAAGAAGGGGGTAGTGAGGGTAGAGACACAAGGCATCTG
Basic information
species | Glycine max |
transcript | GLYMA19G37830.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G37830.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g44370.1 (Oryza sativa), 3'ss of exon 7
-------gtaatt-tttcattctacttcaatgtcactagttatgcttctactaaaaaagttgccatgggaatgatgatttggcttctttcagGAATTTTCCTCCATGATCCTGTCAGTTTTGTGGCAGTTGTGCGTCCAGATCTTTTCACATACAAGAAGGGGGTAGTGAGGGTAGAGACACAAGGCATCTG
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gtatatcgaaatcctctcgttttggtattattctgctagttaccattcaaactgaaatat-actttagc--tgattatttctatgtgttcagGAATTTTCCTCCATGATCCTGTGAGCTTCACTGCCCTAGTTCACCCTGAGTACTTCACGTTCAAGAAGGGTGTTGTGAGAGTAGAAACCCAGGGCATTTG
upper sequence: GLYMA19G37830.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g03690.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------gtaatttttc---attctacttcaatgtc--actagttatgcttctactaaaaaagttgccatggga-atgatga--tttggcttct--ttcagGAATTTTCCTCCATGATCCTGTCAGTTTTGTGGCAGTTGTGCGTCCAGATCTTTTCACATACAAGAAGGGGGTAGTGAGGGTAGAGACACAAGGCATCTG
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gtaatcttccattaaaagttttaatatagtaaaatttccaaatttgaattctttatcttatttgcttcaattttctggtaatcatctacttgatagactctgaagtttgattacaaatgcagGGATCTTCCTTCATGACCCAGTTAGTTTTGCGGCACTGGTCCGGCCTGATCTCTTTACATACAAGGAGGGAGTAGTGAGGGTTGAGACACAGGGAATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttatgcttctactaaaaaagttgccatgggaatgatgatttggcttctttcagGAATTTTCCTCCATGATCCTGTCAGTTTTGTGGCAGTTGTGCGTCCAGATCTTTTCACATACAAGAAGGGGGTAGTGAGGGTAGAGACACAAGGCATCTG
tactaaa putative branch site (score: 1)
cttctttc putative PPT
tactaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttttcattctacttcaatgtcactagttatgcttctactaaaaaagttgccatgggaatgatgatttggcttctttcagGAATTTTCCTCCATGATCCTGTCAGTTTTGTGGCAGTTGTGCGTCCAGATCTTTTCACATACAAGAAGGGGGTAGTGAGGGTAGAGACACAAGGCATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG