Sequence
atgc intronic sequence ATGC exonic sequence...taatatagtttgcaatcttttggttttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g31380.1 (Oryza sativa), 3'ss of exon 4
-taatatagtttgcaatcttttggttttgtgtcttgcagaatacac--gaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
||| | ||| | | |||||| ||||| | ||| | | | | ||| | | | || | | | | | || | | | || | || ||||||| ||||| || ||||||||||||||||| |||||||| || || ||||| || || || || ||||| ||||| ||||| ||| ||||| ||||||
ataagacagtctac---cttttgcttttgatttttgaacatctctcaagaaaaaaaatgtcatataatctcaaagtaaataaaatatgtccgttcctttgcagGTTGACATGATAGTAGTGACTGATGGAAGCAGGATATTGGGCCTGGGTGATCTCGGGGTGCATGGTATTGGTATTGCCATTGGAAAGTTGGATCTATATG
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G406672_T02 (Zea mays), 3'ss of exon 4
taatatagtttgcaatcttttggttttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaa--attattt------ttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
|| || ||| |||| ||| | | | || || ||||| |||||| | || || | | | || |||||| | ||| ||||||| ||||| || ||||||||||||||||| |||||||||||||| |||||||| || || || ||||| ||||| ||||| || ||||||||||||
----atgccttttgatcctttgccttttggagatctaaaagg-acaaacat---ttccagaactttttgtacaattccaaaaatggttatttggccattctgtttcagGTTGACATGATAGTGGTGACTGATGGAAGCAGGATATTGGGTCTTGGTGATCTTGGGGTGCATGGTATTGGCATTGCTATTGGAAAATTGGATTTATATG
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 4
----taatatagtttgcaatcttttggttttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
| |||| | || | || || | | | | | || ||| | || | || | || | ||| ||| |||||||||||||||| || |||||||| |||||||| ||||| |||||||||||||||||||| || ||||| ||||| ||||||||||| ||| ||||||
accttcgcatagcgaagagcctctgggcaatgggg--tacgaagtttttatactaaattgttgaagtatcaaattgaacatctccc--ttgatattcttttcagGTTGATATGATTGTAGTTACTGATGGGAGCAGAATCTTGGGACTTGGAGATCTTGGAGTTCAAGGAATTGGCATTGCCATTGGGAAGCTTGATCTATATG
upper sequence: Vv15s0021g00500.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G13560.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------------------taatatagtttgcaatcttttggtt-ttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
||| | | | ||||| || |||| | ||| | | | | |||| | | | || | | ||||| ||||||||||||||||||| || ||||||||| | || ||||||||||||||||| || ||||| || ||||| ||||| | |||||||| ||||||||||
gttcttcgatatatctgacactgtgcttaagatatctcaactctatttggctgactaatccaatgcgttctaccctctttctcttattgtatacctaggaactggtatatctttaagtgaccattagttttctgatgtaacgtttttgctatacattt-agGTTGATATGATTGTTGTTACCGATGGAAGCCGGATTTTGGGTCTTGGAGATCTAGGTGTTCATGGAATTGGAATTGCTGTAGGGAAGCTTGATTTATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
tattgac putative branch site (score: 2)
ttatttttcatttt putative PPT
aagttataaagtattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatatagtttgcaatcttttggttttgtgtcttgcagaatacacgaacatgatttccagctcaagttataaagtattgacaaattatttttcattttagGTTGATATGATTGTTGTGACTGATGGAAGCAGAATATTGGGTCTTGGAGATCTTGGAGTTCAGGGCATTGGGATTGCAATTGGGAAGCTGGATTTATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - tgcaatc
- - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - aatacac
- - - - - - - - - - - - - - - - - - - - - - -gaacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaatt