Sequence
atgc intronic sequence ATGC exonic sequencegttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g15460.2 (Oryza sativa), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
| |||| | || | || || | | || | | | || | || ||||| | | |||| ||||||||||| || ||||||||||| ||||||| ||||| || || ||||| | |||||||||||||||||||| || | ||| | || |
------------------------------gtgtgaaatctctcgtaaaatatt-gcttattcatacacttgtttttcctgttttgaaaaagag-atgttggtacaaataaaat------gcagGGTGAGAAGGAGTGCTCCTACTACATGAAAACTGGGCAATGTAAATTTGGAACTACATGTAAATTCCATCATCCGGAATTCGGTGGTGTTCCGATGACCC
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G036837_T02 (Zea mays), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaa--cagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
|| | | | ||| |||| || |||| || | | || | ||||| | | || | ||||||||||||||||||||||||||| |||| || ||||| |||||||||||| ||||||||||| |||||||| || | ||| | | || |
-----------------------------------------gtatgagaattctcctatgattgtgtttct----tggattttttaagtattattggaaaaaataattgacattaatgaagtgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTGACCC
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G086994_T01 (Zea mays), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaa--cagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
|| | | | |||| ||| || ||| || | | | || || | |||| | | || || ||||||||||||||||||||||||||| |||| || ||||| |||||||||||| ||||||||||| |||||||| || | ||| | | | |
-----------------------------------------gtatgagaattctcctatggatgtgcttctttgt--aacatttttaact-gtttttgggaaaaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTAACCC
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G086994_T03 (Zea mays), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaa--cagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
|| | | | |||| ||| || ||| || | | | || || | |||| | | || || ||||||||||||||||||||||||||| |||| || ||||| |||||||||||| ||||||||||| |||||||| || | ||| | |
-----------------------------------------gtatgagaattctcctatggatgtgcttctttgt--aacatttttaact-gtttttgggaaaaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCG-------
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G17260.2 (Glycine max), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccat-ttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
|| | | | || || | | | | | || || || | || |||||| | | | | | || ||| ||| | | || ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| | ||||||||||||||||||||||| |||||||||||||||||||
-----------gtatgataatgacacttcttg-------ttgctcttct---tctgcctcgt-gtaatt-gacagcaaatgatgcaatgttaaaacatgccttttgttta----------aacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCGGCTGGCACATCATTGCCAG
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G02550.1 (Glycine max), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
|||| | | || || |||| || ||| | |||| | | || |||||| || | || | || ||| ||||| ||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||| | ||||||||||||||||||||||| ||||||||||||||||||
------gtttgactcttctttttgctcttctgctcg--ttcatgttacctacaccaaataaatgtaat----gattaaaccatgcctttt-------gttta-----------------aacagGGTGAGAAAGAATGCTCCTACTATTTAAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G17250.1 (Glycine max), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
| || | | || || |||| ||| | | | |||| | | || | | |||| | || | | ||| |||||| |||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||| | ||||||||||||||||||||||| ||||||||||||||||||
------gtatgactcttcgttttgctcttctgctca--tccatgttacctacagaaaataat-gcaattggttaaaccatgc----------cttttgttta-----------------aacagGGTGAGAAAGAGTGCTCCTACTATTTGAAAACGGGGCAGTGCAAATTTGGTATATCTTGTAAATTCCATCATCCTCAACCTGCTGGCACATCATTGCCAA
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
| | |||| | | |||| || | | | | ||| |||| | | ||| ||||| | || | || |||||| |||||||||||||||||||||||||||||| ||||||||||| | ||||||| | ||||||||||||||||||||||| || ||||||||||||||||
------------------------gtatgataatggcacttctttttgctcttcttctccctcgc------gtaattgacag--caaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G47850.2 (Arabidopsis thaliana), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttggg---aatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG------------------------------------------------------------------------------
| ||| | ||| | | | ||| | | | || | || || ||| | | ||||||| || ||||||||||||||||||||||||||||| ||||| ||||||||||| |||||||| ||||||||||| || ||||| || | | |||
---------------------------------------------------gtaagctttgtttccactcatgtcaaataaaaggctagtctcgagtttgcatgatcttttataaactctttg-tagggtgataacgaatgctcctactatttgaaaacggggcaatgcaaatttggtataacctgtaaatttcatcatcctcagCCTGCTGGTACTACTGTCCCACCACCACCAGCATCTGCACCTCAGTTTTATCCATCGGTGCAGTCACTTATGCCTGACCAGTATGGAGGTCCATCTTCTA
upper sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G47850.1 (Arabidopsis thaliana), 3'ss of exon 4
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttggg---aatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
| ||| | ||| | | | ||| | | | || | || || ||| | | ||||||| || ||||||||||||||||||||||||||||| ||||| ||||||||||| |||||||| ||||||||||| || ||||| || | | |||
---------------------------------------------------gtaagctttgtttccactcatgtcaaataaaaggctagtctcgagtttgcatgatcttttataaactctttg-tagGGTGATAACGAATGCTCCTACTATTTGAAAACGGGGCAATGCAAATTTGGTATAACCTGTAAATTTCATCATCCTCAGCCTGCTGGTACTACTGTCCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
ttatgtttatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG