Sequence
atgc intronic sequence ATGC exonic sequencegtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
Basic information
species | Glycine max |
transcript | GLYMA07G01860.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
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----------------------------------------------------gttaaataatacacattatgattattgattacacattctagaaaaaaagag-------acttaaattattaatgaaaatgga-cagGTGACAGGGAGAGTAACATACAATGGGCATGGATTGGAAGAGTTTGTGCCACAGAAAACATCAGCATACATAAGCCAAAACGATGTTCATGTTGGAGTCA
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g03580.t01 (Vitis vinifera), 3'ss of exon 3
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaac-agGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
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----------------------------------------------------gtttcccaacgtttaatttatacaatggtactcataaattaatattatcaagttactaaaattt-tatttaatttctttgtgattagATCAAAGGAGAAATCACTTACAATGGGTACAATTTCAATGAATTCGTGCCACAAAAGACGTCTGCATACATTAACCAAAATAATGTTCATCTTGGAGAAC
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 3
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
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------gtcagttttcatattttgc--atgggctcacatcttacaaaaaattagcttgtt-tggtaagtctaaaagtatataatatgatataatattaattactcatcttataatagtaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 3
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
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------gtcagttttcatattttgc--atgggctcacatcttataaaaaattagcttgtt-tggtaagtctaaaagtatataatatgatataatattaattactcatcttataatactaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGGCATAGGCTAAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
ttttgat putative branch site (score: 4)
agttaattaaaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA