Sequence
atgc intronic sequence ATGC exonic sequence...gtgaaagacaaattagttcttttttttcaatgttttatgctcccctctacttctatgtgaatatccttattctattttctgatgtgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G05220.1 (Glycine max), 3'ss of exon 10
gtgaaagacaaattagttcttttttttcaatgttttatgctcccctctacttcta----tgtgaatatccttattctattttctgatgtgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
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-tataaatttactgacatctatccttt--atcttctaaaatgacatgaatcttcggagttgtatgtattttcattttgtcgctttac-tactctgtggtggcagGTTAATAAGATGGGTGGAGAAATCAAGGTTGTCAAAAAGGAGGGCTCAGGAACACTGATGAGATTATGCTTGCGTCTCAGTGCACCTGTGGATGCCACAG
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G36950.1 (Glycine max), 3'ss of exon 10
gtgaaagacaaattagttcttttttttcaatgttttatgctcccctctacttct--atgtgaatatccttattctattttctgatg-tgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
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actataattccctttgtatggtgtcataacaagagcattgtcctttctctttctgaatataatttcctttgatctgatcactactactgtggggtg---gcagGTTAACAAGATGGGTGGAGACATCAGGGTTGTCAAAAAGGAGGGCTCAGGAACACTGATGCGATTATGCTTGCTTCTCAGTGAGCCAATGGATGTCACAG
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G08310.1 (Glycine max), 3'ss of exon 10
gtgaaagacaaattagttcttttttttcaatgttttatgctcccctct---acttctatgtgaatatccttattctattttctgatg-tgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
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-tatcaattcccttagtatgtttacttttctcttctggaataaattgggagatttgaatataatttcctttgatctgatcactactactgtggggtg---gcagGTTAACAAGATGGGTGGAGACATCAGGGTTGTCAAAAAGGAGGGCTCAGGAACACTAATGCGATTATGCTTGCTTCTCAGTGCGCCAATGGATGTCACAG
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G23420.1 (Glycine max), 3'ss of exon 4
gtgaaagacaaattagttcttttttttcaatgttttatgctcccctctacttcta---tgtgaatatccttattctattttctgatgtgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
| || | || ||| | |||| | || || | | |||| ||| ||| | ||| ||| | | || | || | |||||||| |||||||||||||||||||| ||||| || ||| | | ||||| || | ||| | | | ||||| ||||| | ||||| |||| | |||
ctataaattcacttgcatctgtcctttc--tcttctaaaattacacgagtttctgagttgtatgtattttcattttatgtctttat-tattctgtggtggcagGTTAATAAGATGGGTGGAGAAATCAAAGTTGTCAAAAAGGAGGGCCCAGGAACACTGATGAGATTATGCTTGCGTCTCAGTGCACCTGTAGATGCCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacttctatgtgaatatccttattctattttctgatgtgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
ttctgat putative branch site (score: 3)
ttattctattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaagacaaattagttcttttttttcaatgttttatgctcccctctacttctatgtgaatatccttattctattttctgatgtgagaggtactcacagGTTAACAAGATGGGTGGAGAAATCAAGGTTGTGAAGAAGAATAGTCCAGGGACTATAATGCAACTCTACTTGCTTCTCAATACACCTATAGAGGGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- gaaagac
- - - - - - - - - - - - - -caatgtt
- - - - - - - - - - - - - - - - - -tatgctc
- - - - - - - - - - - - - - - - - - - - - ccctcta
- - - - - - - - - - - - - - - - - - - - - - - - - - ctatgtg