Sequence
atgc intronic sequence ATGC exonic sequencegtcataatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagttaggacagtcttccttctttcattgatctgactagttgtagttattgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
Basic information
species | Glycine max |
transcript | GLYMA20G37380.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G37380.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G27210.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcataatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagttaggacagtcttccttctttcattga---tctgactagttgta----gttattgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
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----------------------------------------------------------------gtaatcatcatcattcatcttctctcactgactctctcactctctctaaaatgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
upper sequence: GLYMA20G37380.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G05010.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcataatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagt-taggacagtcttccttctttcattgatctgactagttgtagtta-ttgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
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----------------------------accatcgccatcactattaccatagtaccatcaccattaccatagtaccatcttcatcaccacat-gatttgg-tgctaaaattcacttgtgtttgcttcagGAGGAAGATCTGAATTTGGAGAATGTCTACTATTCAGAAATGAAAGATGCTGGATTCTTCGACGCTGATTGGGAATAACAGGAGTCCTAGTGTCTTGTCA
upper sequence: GLYMA20G37380.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0030g00750.t01 (Vitis vinifera), 3'ss of exon 5
gtcat--aatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagttaggacagtcttccttctttcattgatctgactagttgtag-ttat---------tgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
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gtcatcggatgtccatccct---tgcaagttcctctgttatttct--ttgaaatctgtt-ttgccccattccatgtaatactctattttatgattgattagattcgctataggttatgactgggtgtgctgtgatgacagGAGGAAGATTTGCATTTGGAGAATGTATACTACTCTGAGATGAAAGATGCCGGCTTCTTTGATGCTGATTGGGAGTGATGCAACTGCACTTTCTGAATCAMapped 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|213610385|gb|DB984221.1|DB984221EST: CCGCTTATCTTCCCCTGCTGTATATAACCTTCCTGGCTGACTTTTTTCAG GAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCC
genomic: CCGCTTATCTTCCCCTGCTGTATATAACCTTCCTGGCTGACTTTTTTCAGgtcataatgc ... atgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCC
EST:
gi|10709486|gb|BF009210.1|BF009210EST: CCGCTTATCTTCCCCTGCTGTATATAACCTTCCTGGCTGACTTTNTTCAC GAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCC
genomic: CCGCTTATCTTCCCCTGCTGTATATAACCTTCCTGGCTGACTTTTTTCAGgtcataatgc ... atgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagtcttccttctttcattgatctgactagttgtagttattgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
atctgac putative branch site (score: 3)
tagttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcataatgcccttcacttaatgcctggggttcagtttttactagtcaaaccatgttattgtttgtagttaggacagtcttccttctttcattgatctgactagttgtagttattgtgatgattacagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCCGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT