Sequence
atgc intronic sequence ATGC exonic sequence...tattgcactgtgaaaaagttaaaatttgtttgtgagtaaaatatttcctctaagtcttatgacagcagattatagttgtctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 2
tattgcactgtgaaaaagttaaa-atttgtttgtgagtaaaatatttcctctaagtcttatgacagc-agattatagttgt-ctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
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tatctgtttattgatgctttgtttgagcaatagtgggtgcagcttttctttt---tcttgtttctgttggatgatgattaaatttcatttttgttgttctcagGGTGTTTGCACTGGCGTAGTCATTTTGCTGTTTAGTGGTGGCAAAAGCTCACATATTCTTGTTTTCAGTGAAGATCTTTTCTTTATATATCTTCTACCAC
upper sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 1
tattgcactgtgaaaaagttaaaatttgtttgtgagtaaaat-atttcctctaagtcttatgacagcagattat--agttgtctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
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--tttggcgatgaataatctccgtccgaaccgtgactttgctcatgtatgtaaactattataata-taaatggctgagttaatttattaattgctattttcagGGTATTTGCACTGGGGTAGTCATTTTGTTGTTGAGTCGCGGTAAAAGCTCGCATCTTCTAGTTTTCAGTGAAGATCTTTTCTTTATATACCTTCTGCCAC
upper sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 2
---tattgcactgtgaaaaagttaaaatttgtttgtgagtaaaatatttcctctaagtcttatgac-agcagattatagttgt-ctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
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tatctgtgtattgatgctttgtttgagc--aatagtgggtgcagcttttctttt---tcttgtttctattggatgatgattaaatttcatttttgttgttctcagGGTGTTTGCACTGGCATAGTCATTTTGCTGTTTAGTGGTGGCAAAAGCTCGCATATTCTTGTTTTCAGTGAAGATCTTTTCTTTATATACCTTCTGCCGC
upper sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 1
--------------------------tattg-cactgtgaaaaagttaaaatttgtttgtgagtaaaatatttcctctaagtcttatgacagcagattatagttgtctttat--atggattgatg---gcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
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gtaagtgatcatcactttataattaatataaatactataaataaattattattcatatgtatgtgtgtgcgcgcatgtgtaaattataataacataaaaga-ctgaattaattaattaattgctatttgcagGGTATTTGCACTGGGATAGTCATTTTGTTGTTGAGTCGCGGTAAAAGCTCGCATCTTCTAGTTTTCAGCGAAGATCTTTTCTTTATATACCTTCTGCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctctaagtcttatgacagcagattatagttgtctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
gattgat putative branch site (score: 4)
attatagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgcactgtgaaaaagttaaaatttgtttgtgagtaaaatatttcctctaagtcttatgacagcagattatagttgtctttatatggattgatggcagGGTGTGTGTACTGGAGTTGTTATTTTGCTGACAAGTGGGGGAAGAAGCTCACATCTTCTGGTCTTCAGTGAAGATCTTTTCTTTATATATCTTCTTCCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - tgaaaaa
- - - - - - - - - - - - - - - - - agtaaaa