Sequence
atgc intronic sequence ATGC exonic sequence...agaaggttgtgagagggactttgtgtcttaggtttagaatcatttattaatatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
Basic information
species | Glycine max |
transcript | GLYMA07G06160.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 12
agaaggttgtgagagggactttgtgtct-taggtttagaatcatttattaatatttttcatgacgtctgatatttgccttttacttttcttgatatgat-agGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
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gtaagtttccgattattcttctatttgaatagaatgaataccaat-gccattgatttcca-gttacttggtctatgc--tgaactgctaagtatctgtttagGTCAAGCTTTCGGAGAAGCTTTCACATGTACAGTCCCTCTGTGTACATGAGATGATAGTGAGGGCATTCAAGCATATCGTTCGCTCTGCAATTGCTGCTA
upper sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 14
agaaggttgtgagagggactttgtgtcttaggtttagaatcatttattaa-tatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
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--------------gtaagttggctttcttaacctcgtgtttcttagaaactattcaagatgaattttgat-catccatatcttttttatggtgacaatagGTGAAGCTTTCAGATAAATTGTCACATGTACAATCGCTGTGTGTTCATGAGATGATAGTAAGAGCCCTTAAGCATATCCTCCAGGCGGTGATTTCTGCTG
upper sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0002g01140.t01 (Vitis vinifera), 3'ss of exon 5
-----agaaggttgtgagagggactttgtgtcttaggtttagaatcatttattaatatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
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ttttgaagcgtccatataatattgttcaaaattatgaaatattactatacatgggtttttttc-ccatctcaaataat-gcttgttattttttct---ttaccagGTTAAACTTTCAGAAAAGTTATCACACGTGCAGTCACTTTGTATTCATGAGATGATAGTGCGGGCTTTTAAGCACATTCTGTAG----------------
upper sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 14
-----agaaggttgtgagagggactttgtgtcttaggtttagaatcatttattaatatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
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ttttgaagcgtccatataatattgttcaaaattatgaaatattactatacatgggtttttttc-ccatctcaaataat-gcttggtattttttct---ttaccagGTTAAACTTTCAGAAAAGTTATCACACGTGCAGTCACTTTGTATTCATGAGATGATAGTGCGGGCTTTTAAGCACATTCTGCAGGCAGTAATAGCTGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaatatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
ccttttacttttcttg CT-rich tract
tatttttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaggttgtgagagggactttgtgtcttaggtttagaatcatttattaatatttttcatgacgtctgatatttgccttttacttttcttgatatgatagGTCAAGCTTTCAGAAAAGCTTTCACATGTCCAATCACTTTGTATTCATGAGATGATAGTTCGAGCTTTTAAGCACATCCTGCGGGCAGTAATTTCTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - ggttgtg
- - - - - - - - gactttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgac