Sequence
atgc intronic sequence ATGC exonic sequence...tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G04010.1 (Glycine max), 3'ss of exon 4
tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtt-tattttctcaaaatgt---tgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| | ||| | | || | || | || | ||| || || | | | || ||| ||| | || || | |||| | ||||||| || ||||| |||||||||||||||||||||||||||||||| ||||| ||||| ||||||||||| || ||||||||||| ||| |||||||||
tttaggaaaaaactgtatcacaagactcatgaaatagtgtggta----ttaaaatttgtatgcttaattaattaatgtgatgttaaatctatatgtgaatatagGTCATCGCAGGCTGCCTATCAGAGGAAGAAATCATGGGATTGAAGCAGATGTTCAAGGGGATGGACACTGACAACAGTGGAACCATTACAATTGAAGAGC
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G36000.1 (Glycine max), 3'ss of exon 4
tcactcatggttctgaaactgaaactttc---tggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| | || | | | ||| |||| || || | ||| | | || | | | ||| ||| || || | | ||||| ||||||||||||| ||||||||||| ||||||||||||||||||||| ||||||| ||||| ||||||||||| || ||||||||||| ||| |||| ||||
-taaaaaaaattgttagtcagaacatttctcttgctccacctt-acaagtttgaaagtgtatgatcaaagcaacataacattaaaacattacaaatga-atagGTCATTGCTGGATGTCTATCAGAAGAAGAAATCATGGGATTGAAGGAAATGTTCAAGGGGATGGACACTGACAACAGTGGAACCATTACAATTGAGGAGC
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G08140.1 (Glycine max), 3'ss of exon 4
tcactcatggttctgaaactgaaa--ctttctggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| | || | | ||| | ||| | | | | || | | | ||| ||| || || | | | ||||| ||||||||||||| ||||||||||| |||||||||||||| |||||| ||||||| | ||| ||||||||||| || ||||||||||| ||| |||||||||
-taaaaacatttaatagtcagaacatttctcttgctgcacattgcaagtttgaaagtgtatgatcaaagcaacataacattaaaatattacaaatga-atagGTCATTGCTGGATGTCTATCAGAAGAAGAAATCATGGGGTTGAAGGAAATGTTCAGGGGGATGGACACTGACAACAGTGGAACCATTACAATTGAAGAGC
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G44720.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttacaaattttgag-----gaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| | || | || || | | | | | | ||| | | | |||| | ||| | | | |||| | | | || | | |||||||||| ||||| |||||||||||||||||||||||||||||||| ||||| | ||| ||||| ||||| || ||||||||||| ||| |||||||||
gtaatgctattttagctttctcttcattcttcgtgcatatttacattctagttagaagtggaaaaacaaactaattatcctgatgcaagtcacagactataataaattgaactaaaaaaactgagtttttaaaatccaaaactaatatgatgttaaatcta-catatgaatatagGTCATTGCGGGCTGCCTATCAGAGGAAGAAATCATGGGATTGAAGCAGATGTTCAGGGGGATGGATACTGACAACAGTGGAACCATTACAATTGAAGAGC
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G12180.1 (Arabidopsis thaliana), 3'ss of exon 4
tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttaca-aattttgaggaaatttctttattgtttattttctcaaaatgttg--cagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| ||| || | ||| | | | | | | || | | | || | | || ||| ||| ||||| || || ||||| ||||||||||||| |||||||| |||||| | |||||||| || ||||| ||||||| ||||||||| || ||||| || |||
--------------------gtaacaatcatatatcccttacccaatagaatatgactatcagtagagtatcctaacctagaaac-ctgaaaccattggacagGTGATAGCAGGCTGCTTATCAGAGGAAGAGATCATGGGGTTGAAGGAGATGTTTAAAGGTATGGATACTGATAGTAGTGGAACAATTACACTCGAGGAGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G19360.1 (Arabidopsis thaliana), 3'ss of exon 3
tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
| | | |||| || ||| | || | || | | | | | | || || | | | | | || | |||| | ||||| || || || || |||||||||||||||||||||| || || | ||||| || || ||||||||||| || |||||||||||||| ||||| || |
gtaattaacattctt---ctcaaaaccatatatgtattgtaataaacaatgcgagtcttttggtc-tatatatctcattggcatcatcaacaaa---cagGTGATAGCCGGGTGCTTATCAGAGGAAGAAATCATGGGGTTAAAAGAGATGTTCAAAGGAATGGACACTGACAACAGTGGAACCATAACTCTTGAGGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
aaatttctttattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcactcatggttctgaaactgaaactttctggtcaatcttgatgatctttacaaattttgaggaaatttctttattgtttattttctcaaaatgttgcagGTCATTGCTGGCTGTCTATCAGAGGAAGAAATCATGGGATTGAAGCAAATGTTTAAGGGCATGGACACTGATAATAGTGGAACCATAACACTTGAAGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
-cactcat
- - - - - - - -aaactga
- - - - - - - - - - - - -tttctgg
- - - - - - - - - - - - - - - - - - -cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - acaaatt