Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttctactccctttgtgcttttacagaagataactttttattcttccttaccaacattcattttgttttttattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g59020.1 (Oryza sativa), 3'ss of exon 8
gtatgttttctactccctttgtgcttttacagaagataactttttattcttccttaccaacattcattttgttttttattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
|||||||| | | || ||| | ||| || ||| | || ||||||| |||||| | ||| || ||||| |||| | ||| ||||||| |||||||||||||| ||||||||||| |||||||| |||||||| || || |||||| | ||||||||||||||||||||||
gtatgtttcatgc---ctctgttcctttccaatagacatgacttcattcttc-ttacca-----cgtttaattctttat-----agGTAACTGTTGTCAAGAATGAAGAAGGTGGAAACTCAGTGGCTACGGTTGTCTTAAGAGGCAGCACCGATAGTATATTGGATGATCTTGAAAGAGCTGTTG
upper sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G26920.1 (Glycine max), 3'ss of exon 8
------------------------------------------------------gtatgttttctactccctttgtgcttttacagaagataactttttattcttccttaccaacattcattttgttttttat----------tatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
| | | || |||||| | ||||| | | || | | | | | | | | |||| ||||| || ||| |||| | | | || || ||||| ||||||||||| |||||||||||||| || |||| |||||||| |||||||||||||||||||||||||| || |
gtatgttaaagctggattattttggttctgcctttttatgggttccatgttcctttttttagcttattcccttacttctttttgttcttctcatttctaagtatggcatgcagttttcttttttttttttgataatgatatgatatgcagGTGACCATTGTGAAAAATGAAGAGGGTGGAAATTCTGTGGCTACTGTTGTTTTACGAGGAAGTACTGATAGTATACTAGATGATCTTGAAAGAGCAGTGG
upper sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------------------------gtatgttttctactccctttgtgcttttacagaagataactttt-tattcttccttaccaacattcattttgttttttattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
| | || || |||| || | || ||| | || || | || | || | | | | ||| |||| | | | || || ||||| ||||||||||| || || |||||||| || |||| |||||||| |||||||||||||||||||||||||| || |
gtatgttaaagctggattctttcagttctgtcattttctgggttccatgtttcttttttattttagcttattcccttgcttctttttgttgttgtcatttttaagtattgcatgcaattttcttattttttggataatgatatgatatgcagGTGACCATTGTGAAAAATGAAGAGGGTGGAAATTCTGTAGCCACTGTTGTTTTACGAGGAAGTACTGATAGTATACTAGATGATCTTGAAAGAGCAGTGG
upper sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 8
------------gtatgttttctactccctt--tgtgcttttacagaagataactttttattcttcc-ttacca----acattcattttgtttttta--ttatat-----agGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
|| || ||| | | || | ||| ||| | ||| | |||||| ||| |||| | || | | |||| |||| | | | || || |||||||||||||| || || ||||| || || |||| |||||||| |||||| ||||||| ||||||||||| ||||
gtacttccaaacgtccacccctatcttcctggatatagcattttggttcatatttttcttccctttcattaccatgatgcatgtgttttcctcttcaaataatatctattagGTCACCATTGTGAAAAATGAAGAAGGTGGAAACTCCGTATGCACTGTGGTTTTACGAGGAAGTACTGATAGTATATTAGATGACCTTGAAAGAGCAGTTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|24773918|gb|CA409172.1|CA409172EST: AACTAGGGTACGCAGACTCTGTTTCCGTGGAAGAAATTGGTGGTACTCGG GTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTC
genomic: AACTAGGGTACGCAGACTCTGTTTCCGTGGAAGAAATTGGTGGTACTCGGgtatgttttc ... tattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTC
EST:
gi|60396537|gb|DN229406.1|DN229406EST: AACTAGGGTACGCAGACTCTGTTTCCGTGGAAGAAATTGGTGGTACTCGG GTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTC
genomic: AACTAGGGTACGCAGACTCTGTTTCCGTGGAAGAAATTGGTGGTACTCGGgtatgttttc ... tattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagataactttttattcttccttaccaacattcattttgttttttattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
tccttac putative branch site (score: 2)
ttcattttgtttttt putative PPT
aacattcattttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttctactccctttgtgcttttacagaagataactttttattcttccttaccaacattcattttgttttttattatatagGTTATTGTCATCAAGAACGAAGAAGGTGGAAATTCAGTGGCTACTGTTGTCTTGAGAGGCAGTACTGACAGTATACTAGATGATCTTGAAAGAGCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT