Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgggcttgtatggaacttgcttgttaatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g47225.1 (Oryza sativa), 3'ss of exon 1
gtgagtgggcttgtatggaacttgcttgttaatatttgtattttaatgtgttgatatgtctgagagttttg--gcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
| ||||| | | || | || |||||| | || | | | | | || | || | ||| | | || || |||||||||||||| |||||||| || ||||| ||||| || |||||||| || | ||||||||||
----------------gtaactttcatattgac-ttactatttttaggtcacctttttcttatcaagtatgttgtctttgcagATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g02555.1 (Oryza sativa), 3'ss of exon 1
--------------------------------------gtgagtgggcttgtatggaa---cttgcttgtt--aatatttgtattt-taatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
||| || | |||| || || |||| | ||||| | ||| | | | | | | || || ||||||| ||| || |||||||||||||| || || ||||| ||||||||||| || || || || ||| |||||||||
gtaaataacaccccttctctctcagatgttgtgtgtgtgtgtatgtgtgtgtaagggctctctcagatgttcaagagcttgtacctgctgagtgctaacttctttcctgcatcatgcttc---agGTATAAGATTATTAAGGAAGTTGGTGACGGAACATTTGGGAGTGTTTGGCGCGCGATCAACAAAGAGAGTGGTGAAGTG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 4
------------------------gtgagtgggcttg---tatggaacttgcttgtt----aatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
| | || ||| |||| | ||| | | | | ||||| | || | ||||| | | | | || |||| | | | | || ||||||||||| ||||||||||| || ||||| ||||| || |||||||| |||| ||||||||||
gtaaattttatattgactggctatttagatttttttatcttataacacttcttagttctacagattatctgttttaggttatt--tttgtcttacaacat--gtcttcacagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAGAATGGTGAAGTT
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 5
----------------------------gtgagtgggcttgtatggaacttgcttgtt----aatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
|| | | ||| |||| | ||| | | | ||||||| | || | || || | | | |||| ||| | | | | || ||||||||||| |||||||||||||| ||||| ||||| || || ||||| |||| ||| ||||||
gtaacttttatattgactggctatttaggttgcttttatcttataacacttcttagttctacagattctctattttagattatt--tttgccttatcgcat--gccttcgcagATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTT
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM5G864414_T02 (Zea mays), 3'ss of exon 4
--gtgagtgggcttgtatggaacttgcttgttaatatttgtat----tttaatgtgttgatatgtctgagagttttggcct---------ctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
| || ||| || | || | || ||| | || | ||| |||| |||||| ||| | || ||| ||||| || ||||| |||||||||||||| || ||||| ||||||||||| |||| |||||| | | ||||||||
gtgagaatggtctataaccagacgattataacaa-attagaatactgtctaagctgtttggatgtcttcttaccttgtttttgcattgcgctccagATATACAATTATCAACGAAGTTGGTGATGGAACATTTGGGAGTGTTTGGCGTGCAACCAATAAGGAAAGCGGTGAAGTG
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G35190.2 (Glycine max), 3'ss of exon 1
-----gtgagtgggcttgtatggaacttgct-tgttaatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
| | || | ||| || || | | |||| | || | || | | | | | | | || |||||||| | | |||| |||||||||||||||||||||||||| ||||| ||| |||| || |||||||| || |||||||||
gtgatttctttctctttttgcagaagttactatagtcccccttgtttattgttagttttttttat-taaaattacctgcaaatacagGTACAAGTTAATTAAGGAAGTTGGTGATGGGACTTTTGGGAGTGTCTGGAGAGCTATTAATAAGCAAACCGGTGAAGTT
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 1
gtgagtgggcttgtatggaacttg--cttgtta-atatttgtattttaatgtgttgatatgtctgagagttttggcctct--------acagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
|||||| | | | | || || || | | | ||||| ||| |||| | | || |||| | | ||||||| | | |||| ||||||||||||||||| || ||||| ||||||||| |||| || |||||||| | ||||||||||
gtgagtatttgttgcagaagcctgaagttactatacccctcttttttactgt-caaatatctttaaggtttttcttccttccgtgaacacagGTACAAGTTAATTAAGGAAGTTGGTGATGGAACATTTGGGAGTGTTTGGAGAGCCATTAATAAGCAAAGTGGTGAAGTT
upper sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G34610.1 (Glycine max), 3'ss of exon 1
-----gtgagtgggcttgtatggaacttgcttgttaatatttgtatt--ttaatgtgttgatatgtctgagagttttggcctc---tacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
| | | || | ||| || | ||||| || ||| ||| | | | | | | | || | | |||||||| | | |||| |||||| ||||||||||||| ||||| | ||| ||| |||| || |||||||| ||||||||||||
gtgatttctttttgtttttgcagaagttatgttactatattccccttgtttactgttaagttttttttaataaaattacctgcaaatacagGTACAAGTTAATTAAGGAAATTGGTGATGGGACGTTTGGGACTGTCTGGAGAGCTATTAATAAGCAAACTGGTGAAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttaatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
cctctac CT-rich tract
atatttgtattttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgggcttgtatggaacttgcttgttaatatttgtattttaatgtgttgatatgtctgagagttttggcctctacagGTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG