Sequence
atgc intronic sequence ATGC exonic sequence...atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01110.t01 (Vitis vinifera), 3'ss of exon 7
---atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| || ||| || || | | | | | || | ||| | | | | | |||| || | || | | | | || |||| || ||||||||||||||| || |||||| ||||||||||| ||| | |||||||||||||||||||| | |||||||| | | | | ||
acaagttaccaataaat-taggcagcttttcaggttgat-tttatcttgctgcaagcaggattttatt-tgttggtggtaaacttttaaatttttatctatagGACGAATGTGGTGTCATTGCAGAATGGTGTATTTGCCCATGTCGTACATATATGGGAAGAGGTTTGTTGGTCCAATTACACCTACAATTATTTATTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01180.t01 (Vitis vinifera), 3'ss of exon 4
atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| | | | | | || | | | | | || | | || || | | || | ||| | | | || |||| || |||||||||||||||||| |||||| ||||||||||| ||| | |||||||||||||||||||| | |||||||| | | | ||
acaagttaccaaaaaattaggcagcttttcaggttgattttatctcactgctagcaggattttatttgtcaatggtaaactttcaaatttttatctatagGACGAATGTGGTGTCATTGCCGAATGGTGTATTTGCCCATGTCGTACATATATGGGAAGAGGTTTGTTGGTCCAATTACACCCACAATTATTTCTTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01120.t01 (Vitis vinifera), 3'ss of exon 4
atatatatatatatatatatatatatatatatatatatat-atatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| | | | | | || || | | | | || | || | | | | | |||| || | || | | | | | |||| || ||| || | ||| ||| |||||| ||||||||||| ||| | |||||||||||||||||||| | |||||||| | | | ||
acaagttaccaaaaaattaggtagcttttcaagttgattttatctcattgcaagcaggattttatt-tgtcagtggtaaactttcaaatttttttccatagGACGGATGAATTGCCCTTGTCGAATGGTGTATTTGCCCATGTCGTACATATATGGGAAGAGGTTTGTTGGTCCGATTACACCCACAATTATTTCCTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0018g00630.t01 (Vitis vinifera), 3'ss of exon 5
---atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| || ||| || || | | | | | || | ||| | | | | | |||| || | |||| | | || |||| || |||||||||||||||||| |||||| ||||||||||| ||| | |||||||||||||||||||| | |||||||| | | | ||
acaagttaccaataaat-taggcagcttttcaggttgat-tttatcttactgcaagcaggattttatt-tgttggtgataaactttcaaatttttatctatagGACGAATGTGGTGTCATTGCCGAATGGTGTATTTGCCCATGTCGTACATATATGGGAAGAGGTTTGTTGGTCCAATTACACCTACAATTATTTCTTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01250.t01 (Vitis vinifera), 3'ss of exon 2
---atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| || ||| || || | | | | | ||| | ||| | || | | | |||| | | || | | | || |||| || |||||||||||||||||| ||| || ||||||||||| ||| | |||||||||||||||||||| | |||||||| | | | ||
acaagttaccaataaat-taggcagcttttcaggtttat-tttatctcactacaagcaagattttatt-tattggtggtaagctttcaaatttttatctatagGACGGATGTGGTGTCATTGCCGAATGGTTTATTTGCCCATGTCATACATATATGGGAAGAGGTTTGTTGGTCTAATTACACCCACAATTATTTCTTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01090.t01 (Vitis vinifera), 3'ss of exon 5
---atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| || ||| || || | | | | | || | ||| | | | | | | |||| || || || | | | || |||| || |||||||||||||||||| |||||| ||||||||||| ||| | ||||| |||||||||||||| | |||||||| | | | ||
acaagttaccaataaat-taggcagcttttcaggttgat-tttatctctctgcaagcaggattttatt-tgtcggtggtaaactttcaaatttttatctatagGACGGATGTGGTGTCATTGCCGAATGGTGTATTTGCCCATGTCGTACATATATGGAAAGAGGTTTGTTGGTCCAATTACACCCACAATTATTTCTTTGAG
upper sequence: GRMZM2G341010_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g01550.t01 (Vitis vinifera), 3'ss of exon 5
atatatatatatatatatatatatatatatatatatatat-atatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
| | | | | | || | | | | | || | || | | || | | |||| || || | | | || |||| || |||||||||||||||||| |||||| ||||||||||| || | |||||||||| ||||||||| | || ||| | | | | ||
acaagttactgaaaaattaggtggcttttcaggttgattttatctcgttgtaagcaagattttatt-tgttagtggtaaactttcaaatttttatctatagGACGGATGTGGTGTCATTGCCGAATGGTGTATTTGCCCATGTCATATTTATATGGGAAGAAGTTTGTTGGTCCAATCACATCCACAATTATTTCTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
cgctcac putative branch site (score: 3)
atatatatatatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatgacgatgattattcgctcacaaaataatcgtagGTCGCATGTGGTGTCATTGCCGAGCGGTGTACTTGCCCATGTCTTACGTCTATGGGAAGAGGTTTGTTGGGCGTATTACACCACTTGTCTTGGAACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG