Sequence
atgc intronic sequence ATGC exonic sequence...attagagcatgaaaattgcgatgttctcgaaacacattttgctatattttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 4
attagagcatgaaaattgcgatgttctcgaaacacattttgctatattttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
|| |||| || || | | | ||||| | || | | || | | | ||| | | || || |||||||||||| || ||||| || ||||||||||| ||||| ||||||
-gtaagccatggctatctttctgca-tgatcatgctggcactaatattgacaccatgtgagcatcatttcctcctgttgactgttatgttcaatgtgcagCAATTGGAGCCATCTTTTCTGCGACAGATTCTGTCTGCACATTGCAG
upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 5
-----------------------attagagcatgaaaattgcgatgttctcgaaacacattttgctat-attttctatttgctccccttatcttatattattgttttcacttcat---tatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
| | | |||||| | | |||| || ||| || | || | | || | |||| || || ||| || ||||||||| || || || ||||| |||||||||||||||||||| |||
gttagatactttattcttggcctttctacacttcaaaattattgaagcgactggttggactttggtaccattgaatacatcatcattctgctcgctgtttatctttttgtttaatccatatatgcagCAATTGGGGCTATCTTCTCAGCAACAGATTCTGTTTGCACCTTACAG
upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 5
-----attagagcatgaaaattgcgatgttctcgaaacacattttg-ctatattttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
|| | ||| || || ||| || || | | || | | ||| | || || | | | | |||| || | |||| ||||||||| || ||||| || || |||||||||||||||||||| |||
gttggatatatacttgacccttttcattctctgataatctgattagaccatggatgccattg---tcaatttgctaaaacttgtttttttaccca--tgtttgcagCAATTGGTGCTATTTTCTCGGCAACAGATTCTGTTTGCACCTTACAG
upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 1
-----attagagcatgaaaattgcgatgttctcg-aaacacattttgctatattttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
|| | ||| || | || ||| || | ||| | || | | ||| | || || ||| | |||||| ||| |||| ||||||||| || ||||| || || |||||||||||||||||||| |||
gttggatatatacttgaccctttccattctctgataatctgattagaccatggatgccattg---tcaatttgctaatact--tgttttttacccat-gtttgcagCAATTGGTGCTATTTTCTCGGCAACAGATTCTGTTTGCACCTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
cttcatt CT-rich tract
ttatattattgttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attagagcatgaaaattgcgatgttctcgaaacacattttgctatattttctatttgctccccttatcttatattattgttttcacttcattatttgtagCAATTGGAGCAATTTTTTCAGCTACAGATTCTGTTTGCACCTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - gcatgaa
- - - - - - - - - - - - - - gaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttca