Sequence
atgc intronic sequence ATGC exonic sequencegtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 8
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
| || | | |||| | || | | || | | | | |||| || || | || || || | | ||||| ||||||| ||||| ||||| || || |||| ||||| || | || || |||||||||| ||||||||||| || |||||| |||| |||||||
--------------------------------------------------------gttaatttattttctttgctgtgtttata-------tggttgttcaacaagtttttttgaatc-ctaagcttgcttacttttgtttacagGGTATAATTTCCGGAATAAATGCAGCTAGGCATTCTGATGGAAAGCCACTTATCATTCTTGAGAGAGAAAGCAGTTATATTGGGACTCTGATTGATGATC
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G070058_T01 (Zea mays), 3'ss of exon 1
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
||||||| || | || | | | | ||| | | | || | |||| || | | ||||| | | || || | | | | |||||| ||||||||||||| ||||| || || |||| ||||| ||||| | ||| |||||||||||||||||||||| ||||| ||| | || |||||||
----------------------gtttattcattgtcgttct--gcttgttcttcattagctaattgcagtttgtatg-gttggttggactag----atttgctggatc------------ttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCTGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGGAACTCTTATTGATGATC
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G481548_T01 (Zea mays), 3'ss of exon 8
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
| | | | || |||| || | || | | || || | |||| | ||||| || | | ||||| | | || || | | | | |||||| ||||||||||||| ||||| || || |||| ||||| ||||| | ||| |||||||||||||||||||||| ||||| ||| | || |||||||
---------------gtttattcattgttctgcttgttcttcattagctaattgcagtttgtatggttg---------gttggactag--------atttgctggatc------------ttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCTGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGGAACTCTTATTGATGATC
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G440344_T01 (Zea mays), 3'ss of exon 2
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
| | | | || |||| | | || | | || || | |||| | ||||| || | | ||||| | | || || | | | | |||||| ||||||||||||| ||||| || || |||| ||||| ||||| | ||| |||||||||||||||||||||| |||| ||| | || |||||||
---------------gtttattcattgttctgcctgttcttcattagctaattgcagtttgtatggttg---------gttggactag--------atttgctggatc------------ttaaacttgctgattgctgtatatagGGTATAATTTCTGGAATCAATGCAGCTAGGCATTCCGATGGGAAATCATTAATTATTCTTGAGAGGGAAAGCAGTTATATAGAAACTCTTATTGATGATC
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 7
-----------gtttttatctat-ttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
|| || | | || | || || | || ||| ||||| | ||| | | | | || | ||||| | | | || || | | || || | |||||| | |||||||| || |||||||| ||| || |||| ||||| | | ||||||||||||||||| |||||||| ||||| || || || |||||||
gtattattttaaagttcatttgtactattaaatctaatacttttgtttttttttggtgttgtgacttgcgagttgtatcatgggtagttgactcttcatggctatttgggcttcctgctaatctagcaagctttcttcctgtttacaattcctt-tagGGTATTATTTCTGGTATCAATGCTGCTAGACATGCAGACGGTAAGCCAGTTATTGTTCTTGAGAGGGAGAGCAGTTATATAGGAACATTAATTGATGATC
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G13440.1 (Arabidopsis thaliana), 3'ss of exon 8
-------gtttttatctatttagaatgtcctttattctt--ttttatttttaacaaataggaaaa----gagcatgtggtg---gctttcacatattggaaaaggaagt----cgtagcttctggaccactcttgactctctcaatttat-ccacgcttttc---tgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
| | || ||| ||| ||||| ||| | || || | ||| ||| | || || ||| || | ||| | || || | ||| | || || | | | || | | | | |||||| | |||||| | || |||||||| |||||||||||| || |||| ||||| | | ||||||||||||||||||||||||| ||||| || ||||| ||||||
gtgactgatctgtacgagtttttaatttccttaattatggaccttgagttcatgaaaaaggtttattcggatgatatggaaaaaaattacgaatactataatgaaaactgctgtttagactttgtac-atatatagtgatagcattctctgttattcttttcaaatttagGGTATTATATCTGGAATCAATGCTGCCAGACATGCAGACGGTAAGAAACACGTTGTTCTTGAGAGGGAAAGCAGTTATATAGGTACGTTGATTGATGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
tcttgac putative branch site (score: 3)
cgcttttct putative PPT
tcaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttatctatttagaatgtcctttattcttttttatttttaacaaataggaaaagagcatgtggtggctttcacatattggaaaaggaagtcgtagcttctggaccactcttgactctctcaatttatccacgcttttctgtagGGTTTAATTTCTGGAATTAATGCTGCCAGATATTCAGATGGTAAATCCCTCATTGTTCTTGAGAGGGAAAGCAGTTACATAGGGACTTTGATAGATGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG