Sequence
atgc intronic sequence ATGC exonic sequencegtcagtccttcagttttcctgcaattcatggttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 12
gtcagtccttcagttttcctgcaattcatggttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
|| || ||| |||||| ||||| | | || ||| ||||||| || || ||||||||||| |||| || ||| ||||||||||||| |||||| | ||||||||||||||||||||| |||| |||||||||||||||||||||||||||||||
gtgagctctttga-----ctgcaaatcatgtctatcgacctg--gttctgattttagataaaa----tttcagGTTGGAGCATTCTCTGTATTGAAGGAGCTTGTTGTTGTACTGCCAGACTGTCTTGCTGATCATATTGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 8
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 12
----gtcagtccttcagttttcctgcaattcatggttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
| ||| | | || | || |||||| | || | | | || | | | | || | | ||||||| |||| || || ||| || ||||||||||| | || |||||||||||||||||| |||| |||||||||||||| ||||| | ||| | |
gtatgaaagtgttaaacattctttttggtt--tggttcctgt-ttgatactttcataacttctttcatatctgt-agGTTGGAGCATTCTCTGTTTTGAGAGAACTTGTGGTTGTCCTGCCTGACTGTCTTGCTGATCATATTGGTTCACTTGTTCCTGGAATTGAAAGGGCGCTAA
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 13
--gtcagtccttcagttttcctgcaattcatg-gttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
||| | ||| | || || || || ||| | | | | |||| | ||| | |||||||| |||||||||| |||| |||||||||||||| || |||||||| || || || || ||||||||||| || | || || || || || | |
gtacgagtttcctgatattcttttaaaggatctgtgatgtaaccattggaaatttaacattcatttcatctg-cagGTTGGTGCATTTTCAGTTTTGAAAGAGCTTGTGGTTGTCTTGCCAGACTGCCTGGCAGACCACATTGGATCACTTATTTCGGGAATCGAAAAAGCGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcaattcatggttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
tcctaac putative branch site (score: 1)
catttttc CT-rich tract
tgattatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtccttcagttttcctgcaattcatggttctggaactgtaagtctgattatattcctaacatttttcagGTTGGGACATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTTGGATCACTTGTTCCTGGGATTGAGAAGGCTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT