Sequence
atgc intronic sequence ATGC exonic sequencegttgttcctttctcattcattaggtctacttttgatcccaattgggtctgacccatcaaagatcactatttattcttgcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G05520.1 (Glycine max), 3'ss of exon 4
-gttgttcctttctcattca-----ttaggtctacttttgatcccaat---tgggtctgacccatcaaagatcactatt-tattctt----gcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
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gtttgttcaaaatgaacacaaaatcttagacaagcttgatgttccaacatgcaagggcagagtatgtagattcattattataattttgtaagctcttaatttaattaatgcagGTGATCAAAGAGGCCATGAGGTTTTACACTGTCTCCCCATTAGTTGCAAGAGAAACATCAAATGAAGTAGAGATTGGGGGCTATCTTCTTCCAAAG
upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G34530.1 (Glycine max), 3'ss of exon 4
----gttgttcctttctcattcattaggtctacttttgatcccaattgggtctg-acccatcaaagatcactatttattcttgcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
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gtcagctgatagtgatactttgtgagattcaagattttgtac--gttgaatttgcaaggaccagcaataatgatgtaaaatt--ctcaatttaattaac-gcagGTGATTAAAGAGGCCATGAGGTTTTACACAGTCTCCCCATTGGTTGCAAGAGAAACATCAAATGAGGTGGAGATAGGAGGTTACCTTCTTCCAAAG
upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G05510.1 (Glycine max), 3'ss of exon 4
----gttgt--tcctttctcattcattaggtctacttt--tgatcccaattg--ggtctgacccatcaaagatcactatt-tattcttgcttcct-----ttttcttaac---tgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
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gtttgttaaaatgaataccaaaatctcaagacaagtttgatgttccaacttgcaagggcaaagtatgtagattcattgttatacttttgtatgctctaactctatttaattaatgcagGTGATCAAAGAGGCCATGAGGTTTTACACTGTCTCTCCCTTAGTTGCAAGAGAAACATCAAATGAAGTAGAGATTGGAGGCTATCTCCTTCCAAAG
upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G11040.1 (Glycine max), 3'ss of exon 4
----gttgttcctttctcattcattaggtct---acttttgatcccaattgggtctgacccatcaaagatcactatttattcttgcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
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gtcagctgctagtgatac-tttgtgagattcaagattttgtactttgaatttgcaaggacca--agaaataatgatgtgaaatt--ctcaatttaattaa-tgcagGTGATTAAAGAGGCCATGAGGTTTTACACTGTCTCCCCATTGGTTGCAAGAGAAGCATCAAATGAGGTGGAGATAGGAGGTTATCTTCTTCCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtctgacccatcaaagatcactatttattcttgcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
tcttaac putative branch site (score: 2)
tcactatttattcttg CT-rich tract
tatttattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttcctttctcattcattaggtctacttttgatcccaattgggtctgacccatcaaagatcactatttattcttgcttcctttttcttaactgcagGTTGTTAAAGAGGCAATGAGGTTTTATACAGTTTCCCCATTAGTTGCAAGAGAAACATCTGCAGAAGTAGAGATTGGAGGCTATGTTCTTCCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG