Sequence
atgc intronic sequence ATGC exonic sequencegtatagtattttctatatatggggttttttaactgatcacaatgtcaagctgctcctttactatcgtcctggtattctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g13460.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------gtatagtattttctatatatggggttttttaactgatcaca-atgtcaagc----------tgctcctttactat--cgtcctggtattc----tacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
|| ||||| | | | | || || |||| | || || ||| ||| || ||| | |||| | ||| | | | |||||||| |||||||||||||| | |||||| || || || |||||| |||| ||||| ||| | ||||||||||||||| |||||
gtataatattttcttcagatgcattaaaattcttgttgtacctcatcatatttggcaacttcagtgcttatttactgtttgcatatttcatttctgttgtttgtgcatctccactgtaacgtcaagctatgcaaattgtacagGTGTGGGCCACAGCCTAACTCTAGATTGCTCCTCAACTACGGTTTTATTGACGAAGATAATCCATATGATCGTATAGTGATTGAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------gtatagtattttctatatatggggttttttaactgatcacaatgtcaagctgctcctttactatcgtcctggtattctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
| || | | || | ||||| | || | | || || | ||| || | |||||||| || || | ||||| | | |||||||||||||||||||||||||||| ||| ||| ||||||| ||| |||||
gtactttgttttctttagttgcatcaacattcttgtccttcctcatcatgttttgcagtctgaggtgctgatcacttagtgcagtttttgtgcattattttggtacatccattcaagaacctcaaatcatgtagattatacagGTGTGGGCCCCAAACAAACTCCAGGCTTGTTCTGAATTATGGTTTTGTTGATGAAGATAATCCCTTTGATCGTGTAGCAATTGAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G302195_T03 (Zea mays), 3'ss of exon 1
-----------------------------------------------------------gtatagtattttctatatatggggttttttaactgatcacaatgtcaagctgctcctttactatcgtcctggtattctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
| | | | || || | |||||| | || | || || || ||| || | |||||||| || || | ||||| | | ||||||| |||||||||||||||||| ||||| ||| |||||| ||| |||||
gtactatgttttgttcagttgcattaacattcttgtcctttctcatcatattttgcgatctgagatgctgaccatttagtgcagtttttatgcattattttagtacatatgttcaagaacctcaaattatgtagattatacagGTGTGGACCCCAAACAAACTCCAGGCTTGTTCTGAACTATGGTTTTGTTGATGAAAACAATCCCTTTGATCGCATATCAATTGAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G22520.1 (Glycine max), 3'ss of exon 6
------------------------gtatagtattttctatatatggggttttttaactgatcacaatgtcaagctgct----cctttactatcg----tcctggtattctacat-agGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
| || |||| | | | | | ||| | || || ||| | | ||| | ||| | | | | || | |||||||| || || ||||||||||| |||||| | || |||||||||||||||||| | |||||| |||||||| | | ||||||
gtatgatacgtacttcatttgattgcatgtaatttggaaaaaaagacatggtttggc-aatgactttgtttctttattacgagcttcattataagatttacagttggtcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGATGAAAATAATTCCAATGATCGTCTTATAGTTGAG
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 6
--------------------------gtatagtattttctatatatggggttttttaa----ctgatcacaatgtcaagctgctcctttactatcgtcctggt--attctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
| || | | | | | ||||| || | | | | | | | ||| | ||| | | || | | |||||||| || || ||||||||||| |||||| | || |||||||||||||||||| | |||||| |||||||| | | ||||||
gtatgatacgtacttcatttgattgtatgtaatttagaaaaaagacatggtttggcaaggactttgtttctgtattacga-gcttcattataagatttacagttggtcattttcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGATGAAAATAATTCCAATGATCGTCTTATAGTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactgatcacaatgtcaagctgctcctttactatcgtcctggtattctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
tttactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtattttctatatatggggttttttaactgatcacaatgtcaagctgctcctttactatcgtcctggtattctacatagGTGTGGTCCACAGCCTAACTCAAAATTGCTTCTGAATTATGGTTTTGTTGATGAAGACAATTCCTATGATCGTATAGTGGTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA