Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcttaacattcattctgaagactagccgtctatgatatggactatggagatggatgccgttgacctgtgtttacatcctaatgattgctgactgtgtgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 6
---------------------gtaagttctta-acattcattctgaagactagccgtctatgatatggactatggagatggatgccgttgacctgtgtttacatcctaatgattgctgactgtgtgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
|| ||||| | | || |||| |||| | || | |||| || || | | || | | ||| | |||| | || |||||| | || ||||| |||| ||| || || |||||||| ||| | |||||||||||||| || |||||||||||||||||||||| || ||||||||||| || | ||| |
gtaagttaccatgaattttgagtttcgtcttatatggttatcatgaacactatgcatcaa-gatagtagct-tgagatctgtcatcattaatc-atgtgcctttgctaaagttttctgactatatg----gcagATTGTCAATGAAAATACTTTGATGCAACACAAGGTTGCTCTTCCACCTGGCGCTATGGGGAAAATAAGTTACATCGCCCCAGCTGGTCAATATAGCCTGC
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT1G78900.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagttcttaacattcattctgaagactagccgtctatgatatggactatggagatggatgccgttga----cctgtgtttacatcc----taatgattgctgactgtg-----------tgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
||||||| | || | | | | || | | | |||| | | | | |||| | || |||||||| || | || |||| || || |||||||||||||||||||||| |||||| | |||| ||||| ||||| |||| | | |||||||| || | ||||||||| ||||||||||| || |||
gtaagtttattggtctcctcttta--atctgcttttgacaagggaatctatttacacagttaccgtggtgtttcccttgtttacactgggaatagttttttctgaaagtcaaattaaactttggaatgcagACTGTCTTTGAGAACACTTTGATGAATCACCTCGTTGCCCTTCCTCCGGATGCCATGGGGAAGATCACTTACATTGCTCCAGCTGGTCAATATTCGCTTA
upper sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------gtaagttcttaa-cattcattctgaagactagccgtctatgatatggactatggagatggatgccg-ttgacctgtgtttacatcctaatgattgctgactgtgtgtgtt-------gcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
|| ||| || || | | | || | || | |||| | | ||| | || | || |||| | | | | | |||| | | || |||||||||||||||||||| || ||||||||||||||||| ||||| || | | ||||||| || || | || |||||||||||||||| ||| |
gtaagtttgttagcattgaacttggttattaaaaatttgaaggcctgtctattcaaaaacagaaaatttaaaataaataaatcaagaatattggtctcagttgaatatgatgattttcttgcatttagtttcatctaagtcctgatatggaatttttttctatgcagACTGTCTTTGAGAACAGTTTAATGCAGCACCATGTTGCCCTTCCTCCTGATGCTATGGGAAAGATCACGTATGTTGCACCAGCTGGTCAATACTCGTTGAMapped 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|116813623|gb|EC856086.1|EC856086EST: GTGTTGGAGATGTCATCACAGGTGGAGATCTATACGCT ACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGT
genomic: GTGTTGGAGATGTCATCACAGGTGGAGATCTATACGCTgtaagttctt ... tgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatgccgttgacctgtgtttacatcctaatgattgctgactgtgtgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
tgctgac putative branch site (score: 2)
taatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcttaacattcattctgaagactagccgtctatgatatggactatggagatggatgccgttgacctgtgtttacatcctaatgattgctgactgtgtgtgttgcagACTGTCTTTGAGAACACATTGATGCAGCACCATGTTGCTCTTCCACCGGGTTCTATGGGGAAAATAAGTTACATTGCACCAGCTGGTCAGTACAACCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG