Sequence
atgc intronic sequence ATGC exonic sequencegtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
----------------------------gtttttcat-ccttatattttataatttggat--ccttgaatagatctc----tttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
||| | | | ||| || || || || | || | | | ||| | ||| | || | || | | | | | ||| |||||| || || | |||||| | | |||| |||||||||||||||||||| ||||| ||||| |||||||||||||| || || || |||||
gtaagaataaaagcgacacttaagtgaaatttgttgtgctttagtgttgattatactaattgtccagagaaagtaccgaaattttgcagtgctaacatacagtttatgttcatttgtatattcattttctggctagATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
||| |||| | | | | || | ||| | | | | |||| | | | |||| || | ||| ||||||||| || || |||| |||||| || | ||||| ||||||||||| | ||||| ||||| ||||||||||||||||||||||| || || || ||
---------gtatatttttttacaatggaaatctggtataagcttatctgtgtgcaa----ataaattctaatac---ttatctttcaa-----tttacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G062034_T01 (Zea mays), 3'ss of exon 4
----------------gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatca-----ttataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
| || | | || | |||| | | ||| | || || | | || ||||| || |||||| | ||| | || ||| | ||| || || | || || | | |||| |||||||||||||| ||||| || || ||||| |||||||||||||| || || || ||| |
gtgctaatgacattgaaataaaaatatatcttttgtttaatctatttaattgctataagtactcataaaatagcactgagttatacattttttgtcatatctttctttcttgtttgttatagATATGGTTTTCAACGATATTCGGCCACTAATTAGATCAGTTCTTGATGGCTACAATGTTTGCATTTTTGCATATGGTCAAACTGGATCAGGAAAAACACA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G323622_T01 (Zea mays), 3'ss of exon 4
gtttttcatccttatattttata-atttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
||||| ||| || | || | ||| | || ||| | || || | ||||| | | ||| || ||| || || ||||| | || || || | |||| ||||||||||| | |||||| || || ||||| ||||||||||||||||| || ||||| ||
-----------gtatatcttaagtatgttaatggtgcaatctaaaatttaaaagttgt-ataattgaatattactcaccaagttttcttgcctaatttccagTTGAAGTATTCTCTGATATCCAGCCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGTTCAGGAAAGACTTA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
---------------------------------------------------gtttttcatccttatatt------ttata---atttggatccttgaatagatct-ctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
|||||||| | ||| | ||||| | | || | || | ||| | | | ||| | || |||| | ||||| || ||||| | | ||||||||||| | |||||| ||| |||| ||||||| || |||||||| | |||||||||||||||||||||||| || |||||||| || || || ||
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtg-ttgattgttattactct----aaatgat-gcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattat--gcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
||| | ||| |||| ||| | | || | | | | | | | | || ||||| | ||| || ||| ||| | |||| ||| ||||| | ||||||| |||| |||| || |||| ||||| ||||| |||||||| ||||||||||||||||| ||||||||||| || || || ||
--gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaatgttgtactaatgatattaaattgaataatgc----agCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G04580.1 (Glycine max), 3'ss of exon 5
-gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattat--gcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
| |||| | || |||| || | | || | | | | | | |||| ||||| | ||| || ||| ||| | |||| ||| ||||| | ||||||| |||| |||| || |||| ||||| ||||| |||||||| ||||||||||||||||| ||||||||||| || || || ||
aggttttaggattaattttttttatcacagtttctccctgattaagttgttatgttaacattctaatgttgtactaatgatattaaattgaataatgc----agCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGATATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G10190.1 (Glycine max), 3'ss of exon 12
gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
|| | ||| | || || || || || |||| | ||||| || ||||| | ||| ||||||||| | ||| | ||| || ||||||| || |||||||||| |||||||||||||||||||||||| || ||||
--------------------------------gttatttggatattttacactttattgttgta----ttgattgttattactct----aaatgat-gtaactgagGTGTATGTTGAAATACAAGATTTTATACGATCAGTGCTTGATGGCTTTAATGTATGTATATTTGCTTATGGCCAGACTG---------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
gcttgac putative branch site (score: 4)
agaaatcattataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttcatccttatattttataatttggatccttgaatagatctctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA