Sequence
atgc intronic sequence ATGC exonic sequence...ggcttttttactttttagtttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 10
---ggctttttt-----actttttagtttgatttttttaaattt--ttttctctgtccatc-tttcccaatatttttttcatcttcactcactaatcctgctttta-tacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
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gtaggttctatatggagatgtgtcaatttgctttgcctaacttttgtttgttctacctaacatatctccactgatcttcacttcccaatgatacatcctctcactactgcagTCTGGACCTGATGAAAGATGCATCCCTGGAAACACAATTGCCGTGCAAGCAGACATGCCATATAGTGGCTTGTCATCTTTTGGGACAGCATTTCTATCAA
upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G065012_T02 (Zea mays), 3'ss of exon 10
-----ggcttttttactttttagttt-----gatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcact-cactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
|| || ||| | || | || | | | ||| | |||||||||| | | |||| || ||| | ||||||||||| || |||||| | |||||||||||||| || || || ||||| |||||||| |||||||| ||| || | || ||||| |||||||||||||
gtaagttctgttcgactcctatgtctctatcaatcacacttgactccattcagtacgtatctttcccacgcatcctctcattcctacaacacctgctttttgccgccgcagTCTGGACCAGACGAAAGATGCATTCCTGGAAACACCATCGCCGTCCAAGCTGACATGCCATACAGTGGCCTGTCATCGTTCGGAACAGCATTTTTGTCCA
upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G10150.1 (Glycine max), 3'ss of exon 10
ggcttttttactttttagtttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttt----tatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
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--tagcattagtattaagtttaatatgttgaaatgatagt-tatgtagggaaatta-attgttgtgctagtttttaagagctaattatagttttgtttacatagTCTGGACCTGATGAAAGAAGCATTCCTGGCAATACTATTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGTACATCATTTTTGTCCA
upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 10
ggcttttttactttttagt--ttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
|| ||| ||| || | || | | | || | || | | | || || |||| || ||| ||| | || | || ||||||||||||| ||||||| ||||| |||||||||| || ||||||| |||||||||||||| | |||||||| ||||||||||| || ||||||||||| |
-aattattttcttaataatcctttaatctagtagtcatcttgaaaaaatgagttattgcattagttttatcttcta-actagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
upper sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 10
ggcttttttactttttagtttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttttat---acagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
| ||||| | | | || |||| || | | | | | | | | || | | ||| || | | | | |||||||||||||||||||||||| ||||| || |||||| | || ||||||||||| ||||| | ||||||||| ||||||||||| || || |||||||| |
-catattttaagtgtcaatt--atttagttgacaatggtagctagattacttcatttgcacctctcttgaaggtgacttctatatgttcaatgtgtttcacagTCTGGACCTGATGAAAGAAGCATTCCGGGGAACACAGTAGCAGTTCAAGCAGATATGCCATTCAGTGGTCTTACAACTTTTGGGACTGCCTTTTTGTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatctttcccaatatttttttcatcttcactcactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
cactaat putative branch site (score: 2)
tcctgctttt CT-rich tract
aatatttttttcatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcttttttactttttagtttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA
- - - - - - - - - - - - - - - - - - - - - ctgtcca
- - - - - - - - - - - - - - - - - - - - - - - - - ctttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcctgc