Sequence
atgc intronic sequence ATGC exonic sequencegttagaagcgtttctttaccattcccattccccagtcttacttaacctatttatctatatgggtttggaatgaactttgatgatgattttgataatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73110.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G44940.1 (Glycine max), 3'ss of exon 6
gttagaagcgtttct--ttaccattcccattccccagtcttacttaacctatt-tatctatatgggtttggaatgaactttgatgatgattttgataatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
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--cagtattacctctagcttcaatacctatgttttgaattgagcaatgttattgcaattgtttaatctgctaacattgtttagtattgctttcc-cgatacagGGAAAAATGAGCTGTTTGATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
upper sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv09s0018g01270.t01 (Vitis vinifera), 3'ss of exon 6
gttagaagcgtttctttaccattcccattccccagtcttacttaacctattta-tctatatgggtttggaatgaacttt--gatgatgatt-ttga-taatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
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----tgaatatttctgatttatatcaatgtcctaatgg-atgtttcttatcgactttgtttgagtacttaatgcagttatggttgattttccttgactaccgcagGGGAAGATGAGCTGTTTAATGATCAATGACATTGATGCTGGCATTGGGAGATTTGMapped 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|124738104|gb|EH829506.1|EH829506EST: TCATTCAGAATCAA GGAAAGATGAGTGTTCTCATGANCAATGATATTGATGCTGGCCTTGGTAGA
genomic: TCATTCAGAATCAAgttagaagcg ... gataatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctatttatctatatgggtttggaatgaactttgatgatgattttgataatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
ttttgat putative branch site (score: 4)
atgattttgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagaagcgtttctttaccattcccattccccagtcttacttaacctatttatctatatgggtttggaatgaactttgatgatgattttgataatgcagGGAAAGATGAGTGTTCTCATGATCAATGATATTGATGCTGGCCTTGGTAGATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG